Add comprehensive tests for vector/semantic search functionality

- Implement full coverage tests for Embedder model loading and embedding generation
- Add CRUD operations and caching tests for VectorStore
- Include cosine similarity computation tests
- Validate semantic search accuracy and relevance through various queries
- Establish performance benchmarks for embedding and search operations
- Ensure edge cases and error handling are covered
- Test thread safety and concurrent access scenarios
- Verify availability of semantic search dependencies

.claude/rules/active_memory.md

@@ -0,0 +1,13 @@
+# Active Memory
+
+> Auto-generated understanding of frequently accessed files using GEMINI.
+> Last updated: 2025-12-14T08:59:41.526Z
+> Files analyzed: 10
+> CLI Tool: gemini
+
+---
+
+[object Object]
+
+---
+

.claude/rules/active_memory_config.json

@@ -0,0 +1,4 @@
+{
+  "interval": "manual",
+  "tool": "gemini"
+}

.claude/rules/cli-tools-usage.md

@@ -0,0 +1,36 @@
+# CLI Tools Usage Rules
+
+## Tool Selection
+
+### Gemini & Qwen
+**Use for**: Analysis, documentation, code exploration, architecture review
+- Default MODE: `analysis` (read-only)
+- Prefer Gemini; use Qwen as fallback
+- Large context window, pattern recognition
+
+### Codex
+**Use for**: Feature implementation, bug fixes, autonomous development
+- Requires explicit `--mode auto` or `--mode write`
+- Best for: Implementation, testing, automation
+
+## Core Principles
+
+- Use tools early and often - tools are faster and more thorough
+- Always use `ccw cli exec` for consistent parameter handling
+- ALWAYS reference exactly ONE template in RULES section
+- Require EXPLICIT `--mode write` or `--mode auto` for modifications
+- NEVER use escape characters (`\$`, `\"`, `\'`) in CLI commands
+
+## Permission Framework
+
+- `analysis` (default): Read-only, safe for auto-execution
+- `write`: Requires explicit `--mode write` - creates/modifies/deletes files
+- `auto`: Requires explicit `--mode auto` - full autonomous operations (Codex only)
+
+## Timeout Guidelines
+
+- Simple (5-10min): Analysis, search
+- Medium (10-20min): Refactoring, documentation
+- Complex (20-60min): Implementation, migration
+- Heavy (60-120min): Large codebase, multi-file operations
+- Codex multiplier: 3x allocated time (minimum 15min)

.claude/rules/coding-philosophy.md

@@ -1,19 +1,6 @@
+# Coding Philosophy
 
-### Tool Context Protocols
-For all  tool usage, command syntax, and integration guidelines:
-- **Tool Strategy**: @~/.claude/workflows/tool-strategy.md
-- **Intelligent Context Strategy**: @~/.claude/workflows/intelligent-tools-strategy.md
-- **Context Search Commands**: @~/.claude/workflows/context-search-strategy.md
-
-**Context Requirements**:
-- Identify 3+ existing similar patterns before implementation
-- Map dependencies and integration points
-- Understand testing framework and coding conventions
-
-
-## Philosophy
-
-### Core Beliefs
+## Core Beliefs
 
 - **Pursue good taste** - Eliminate edge cases to make code logic natural and elegant
 - **Embrace extreme simplicity** - Complexity is the root of all evil
@@ -27,33 +14,16 @@ For all  tool usage, command syntax, and integration guidelines:
 - **Minimize changes** - Only modify what's directly required; avoid refactoring, adding features, or "improving" code beyond the request
 - **No unsolicited documentation** - NEVER generate reports, documentation files, or summaries without explicit user request. If required, save to .workflow/.scratchpad/
 
-### Simplicity Means
+## Simplicity Means
 
 - Single responsibility per function/class
 - Avoid premature abstractions
 - No clever tricks - choose the boring solution
 - If you need to explain it, it's too complex
 
-## Project Integration
+## Fix, Don't Hide
 
-### Learning the Codebase
-
-- Find 3 similar features/components
-- Identify common patterns and conventions
-- Use same libraries/utilities when possible
-- Follow existing test patterns
-
-### Tooling
-
-- Use project's existing build system
-- Use project's test framework  
-- Use project's formatter/linter settings
-- Don't introduce new tools without strong justification
-
-
-### Fix, Don't Hide
-
-- **Solve problems, don't silence symptoms** - Skipped tests, `@ts-ignore`, empty catch, `as any`, excessive timeouts = hiding bugs, not fixing them
+**Solve problems, don't silence symptoms** - Skipped tests, `@ts-ignore`, empty catch, `as any`, excessive timeouts = hiding bugs, not fixing them
 
 **NEVER**:
 - Make assumptions - verify with existing code
@@ -70,18 +40,3 @@ For all  tool usage, command syntax, and integration guidelines:
 - Learn from existing implementations
 - Stop after 3 failed attempts and reassess
 - **Edit fallback**: When Edit tool fails 2+ times on same file, try Bash sed/awk first, then Write to recreate if still failing
-
-## Platform-Specific Guidelines
-
-### Windows Path Format Guidelines
-- **MCP Tools**: Double backslash `D:\\path\\file.txt`
-- **Bash Commands**: Forward slash `D:/path/file.txt` or `/d/path/file.txt`
-- **Relative Paths**: Universal (works in both)
-
-#### **Content Uniqueness Rules**
-
-- **Each layer owns its abstraction level** - no content sharing between layers
-- **Reference, don't duplicate** - point to other layers, never copy content
-- **Maintain perspective** - each layer sees the system at its appropriate scale
-- **Avoid implementation creep** - higher layers stay architectural
-

.claude/rules/context-requirements.md

@@ -0,0 +1,7 @@
+# Context Requirements
+
+Before implementation, always:
+
+- Identify 3+ existing similar patterns before implementation
+- Map dependencies and integration points
+- Understand testing framework and coding conventions

.claude/rules/intelligent-tools-strategy.md

@@ -15,14 +15,25 @@
 ### Universal Prompt Template
 
 ```
-PURPOSE: [objective + why + success criteria]
-TASK: • [step 1] • [step 2] • [step 3]
+PURPOSE: [what] + [why] + [success criteria] + [constraints/scope]
+TASK: • [step 1: specific action] • [step 2: specific action] • [step 3: specific action]
 MODE: [analysis|write|auto]
-CONTEXT: @**/* | Memory: [session/tech/module context]
-EXPECTED: [format + quality + structure]
-RULES: $(cat ~/.claude/workflows/cli-templates/prompts/[category]/[template].txt) | [constraints] | MODE=[permission]
+CONTEXT: @[file patterns] | Memory: [session/tech/module context]
+EXPECTED: [deliverable format] + [quality criteria] + [structure requirements]
+RULES: $(cat ~/.claude/workflows/cli-templates/prompts/[category]/[template].txt) | [domain constraints] | MODE=[permission]
 ```
 
+### Intent Capture Checklist (Before CLI Execution)
+
+**⚠️ CRITICAL**: Before executing any CLI command, verify these intent dimensions:
+**Intent Validation Questions**:
+- [ ] Is the objective specific and measurable?
+- [ ] Are success criteria defined?
+- [ ] Is the scope clearly bounded?
+- [ ] Are constraints and limitations stated?
+- [ ] Is the expected output format clear?
+- [ ] Is the action level (read/write) explicit?
+
 ### Tool Selection
 
 | Task Type | Tool | Fallback |
@@ -128,14 +139,15 @@ ASSISTANT RESPONSE: [Previous output]
 
 Every command MUST include these fields:
 
-| Field | Purpose | Example |
-|-------|---------|---------|
-| **PURPOSE** | Goal, why needed, success criteria | "Analyze auth module for security vulnerabilities" |
-| **TASK** | Actionable steps (• bullet format) | "• Review patterns • Identify risks • Document findings" |
-| **MODE** | Permission level | `analysis` / `write` / `auto` |
-| **CONTEXT** | File patterns + Memory context | `@src/**/* | Memory: Previous refactoring (abc123)` |
-| **EXPECTED** | Deliverable format, quality criteria | "Security report with risk levels and recommendations" |
-| **RULES** | **Template (REQUIRED)** + constraints | `$(cat ~/.claude/.../analysis/02-analyze-code-patterns.txt) | Focus on auth | analysis=READ-ONLY` |
+| Field | Purpose | Components | Bad Example | Good Example |
+|-------|---------|------------|-------------|--------------|
+| **PURPOSE** | Goal + motivation + success | What + Why + Success Criteria + Constraints | "Analyze code" | "Identify security vulnerabilities in auth module to pass compliance audit; success = all OWASP Top 10 addressed; scope = src/auth/** only" |
+| **TASK** | Actionable steps | Specific verbs + targets | "• Review code • Find issues" | "• Scan for SQL injection in query builders • Check XSS in template rendering • Verify CSRF token validation" |
+| **MODE** | Permission level | analysis / write / auto | (missing) | "analysis" or "write" |
+| **CONTEXT** | File scope + history | File patterns + Memory | "@**/*" | "@src/auth/**/*.ts @shared/utils/security.ts \| Memory: Previous auth refactoring (WFS-001)" |
+| **EXPECTED** | Output specification | Format + Quality + Structure | "Report" | "Markdown report with: severity levels (Critical/High/Medium/Low), file:line references, remediation code snippets, priority ranking" |
+| **RULES** | Template + constraints | $(cat template) + domain rules | (missing) | "$(cat ~/.claude/.../security.txt) \| Focus on authentication \| Ignore test files \| analysis=READ-ONLY" |
+
 
 ### CONTEXT Configuration
 
@@ -303,42 +315,55 @@ CCW automatically maps to tool-specific syntax:
 
 ### Command Examples
 
+#### Task-Type Specific Templates
+
+**Analysis Task** (Security Audit):
 ```bash
-# Analysis (default)
 ccw cli exec "
-PURPOSE: Analyze authentication
-TASK: • Review patterns • Identify risks
+PURPOSE: Identify OWASP Top 10 vulnerabilities in authentication module to pass security audit; success = all critical/high issues documented with remediation
+TASK: • Scan for injection flaws (SQL, command, LDAP) • Check authentication bypass vectors • Evaluate session management • Assess sensitive data exposure
 MODE: analysis
-CONTEXT: @**/* @../shared/**/*
-EXPECTED: Analysis report
-RULES: $(cat ~/.claude/workflows/cli-templates/prompts/analysis/02-analyze-code-patterns.txt) | analysis=READ-ONLY
-" --tool gemini --cd src/auth --includeDirs ../shared
-
-# Write mode
-ccw cli exec "
-PURPOSE: Generate API docs
-TASK: • Create docs • Add examples
-MODE: write
-CONTEXT: @src/api/**/*
-EXPECTED: Complete documentation
-RULES: $(cat ~/.claude/workflows/cli-templates/prompts/development/02-implement-feature.txt) | write=CREATE/MODIFY/DELETE
-" --tool gemini --mode write
-
-# Auto mode (Codex)
-ccw cli exec "
-PURPOSE: Implement auth module
-TASK: • Create service • Add validation • Setup JWT
-MODE: auto
-CONTEXT: @**/* | Memory: Following project security patterns
-EXPECTED: Complete module with tests
-RULES: $(cat ~/.claude/workflows/cli-templates/prompts/development/02-implement-feature.txt) | auto=FULL
-" --tool codex --mode auto
-
-# Fallback strategy
-ccw cli exec "<prompt>" --tool gemini    # Primary
-ccw cli exec "<prompt>" --tool qwen      # Fallback
+CONTEXT: @src/auth/**/* @src/middleware/auth.ts | Memory: Using bcrypt for passwords, JWT for sessions
+EXPECTED: Security report with: severity matrix, file:line references, CVE mappings where applicable, remediation code snippets prioritized by risk
+RULES: $(cat ~/.claude/workflows/cli-templates/prompts/analysis/03-assess-security-risks.txt) | Focus on authentication | Ignore test files | analysis=READ-ONLY
+" --tool gemini --cd src/auth --timeout 600000
 ```
 
+**Implementation Task** (New Feature):
+```bash
+ccw cli exec "
+PURPOSE: Implement rate limiting for API endpoints to prevent abuse; must be configurable per-endpoint; backward compatible with existing clients
+TASK: • Create rate limiter middleware with sliding window • Implement per-route configuration • Add Redis backend for distributed state • Include bypass for internal services
+MODE: auto
+CONTEXT: @src/middleware/**/* @src/config/**/* | Memory: Using Express.js, Redis already configured, existing middleware pattern in auth.ts
+EXPECTED: Production-ready code with: TypeScript types, unit tests, integration test, configuration example, migration guide
+RULES: $(cat ~/.claude/workflows/cli-templates/prompts/development/02-implement-feature.txt) | Follow existing middleware patterns | No breaking changes | auto=FULL
+" --tool codex --mode auto --timeout 1800000
+```
+
+**Bug Fix Task**:
+```bash
+ccw cli exec "
+PURPOSE: Fix memory leak in WebSocket connection handler causing server OOM after 24h; root cause must be identified before any fix
+TASK: • Trace connection lifecycle from open to close • Identify event listener accumulation • Check cleanup on disconnect • Verify garbage collection eligibility
+MODE: analysis
+CONTEXT: @src/websocket/**/* @src/services/connection-manager.ts | Memory: Using ws library, ~5000 concurrent connections in production
+EXPECTED: Root cause analysis with: memory profile, leak source (file:line), fix recommendation with code, verification steps
+RULES: $(cat ~/.claude/workflows/cli-templates/prompts/analysis/01-diagnose-bug-root-cause.txt) | Focus on resource cleanup | analysis=READ-ONLY
+" --tool gemini --cd src --timeout 900000
+```
+
+**Refactoring Task**:
+```bash
+ccw cli exec "
+PURPOSE: Refactor payment processing to use strategy pattern for multi-gateway support; no functional changes; all existing tests must pass
+TASK: • Extract gateway interface from current implementation • Create strategy classes for Stripe, PayPal • Implement factory for gateway selection • Migrate existing code to use strategies
+MODE: write
+CONTEXT: @src/payments/**/* @src/types/payment.ts | Memory: Currently only Stripe, adding PayPal next sprint, must support future gateways
+EXPECTED: Refactored code with: strategy interface, concrete implementations, factory class, updated tests, migration checklist
+RULES: $(cat ~/.claude/workflows/cli-templates/prompts/development/02-refactor-codebase.txt) | Preserve all existing behavior | Tests must pass | write=CREATE/MODIFY/DELETE
+" --tool gemini --mode write --timeout 1200000
+```
 ---
 
 ## Configuration

.claude/rules/project-integration.md

@@ -0,0 +1,22 @@
+# Project Integration Rules
+
+## Learning the Codebase
+
+- Find 3 similar features/components
+- Identify common patterns and conventions
+- Use same libraries/utilities when possible
+- Follow existing test patterns
+
+## Tooling
+
+- Use project's existing build system
+- Use project's test framework
+- Use project's formatter/linter settings
+- Don't introduce new tools without strong justification
+
+## Content Uniqueness Rules
+
+- **Each layer owns its abstraction level** - no content sharing between layers
+- **Reference, don't duplicate** - point to other layers, never copy content
+- **Maintain perspective** - each layer sees the system at its appropriate scale
+- **Avoid implementation creep** - higher layers stay architectural

.claude/rules/tool-selection.md

@@ -0,0 +1,88 @@
+# Tool Selection Rules
+
+## Context Gathering
+
+### Use Exa
+- Researching external APIs, libraries, frameworks
+- Need recent documentation beyond knowledge cutoff
+- Looking for implementation examples in public repos
+- User mentions specific library/framework names
+- Questions about "best practices" or "how does X work"
+
+### Use read_file (MCP)
+- Reading multiple related files at once
+- Directory traversal with pattern matching
+- Searching file content with regex
+- Need to limit depth/file count for large directories
+- Batch operations on multiple files
+- Pattern-based filtering (glob + content regex)
+
+### Use codex_lens
+- Large codebase (>500 files) requiring repeated searches
+- Need semantic understanding of code relationships
+- Working across multiple sessions
+- Symbol-level navigation needed
+- Finding all implementations of interface/class
+- Tracking function calls across codebase
+
+### Use smart_search
+- Unknown file locations
+- Concept/semantic search ("authentication logic", "payment processing")
+- Medium-sized codebase (100-500 files)
+- One-time or infrequent searches
+- Natural language queries about code structure
+
+**Mode Selection**:
+- `auto`: Let tool decide (default)
+- `exact`: Known exact pattern
+- `fuzzy`: Typo-tolerant search
+- `semantic`: Concept-based search
+- `graph`: Dependency analysis
+
+## File Modification
+
+### Use edit_file (MCP)
+- Built-in Edit tool failed 1+ times
+- Need dry-run preview before applying changes
+- Need line-based operations (insert_after, insert_before)
+- Need to replace all occurrences at once
+- Built-in Edit returns "old_string not found"
+- Whitespace/formatting issues in built-in Edit
+
+**Mode Selection**:
+- `mode=update`: Replace text
+- `mode=line`: Line-based operations
+
+### Use write_file (MCP)
+- Creating brand new files
+- MCP edit_file still fails (last resort)
+- Need to completely replace file content
+- Need backup before overwriting
+- User explicitly asks to "recreate file"
+
+## Priority Logic
+
+**File Reading**:
+1. Known single file → Built-in Read
+2. Multiple files OR pattern matching → read_file (MCP)
+3. Unknown location → smart_search then Read
+4. Large codebase + repeated access → codex_lens
+
+**File Editing**:
+1. Always try built-in Edit first
+2. Fails 1+ times → edit_file (MCP)
+3. Still fails → write_file (MCP)
+
+**Search**:
+1. External knowledge → Exa
+2. Exact pattern in small codebase → Built-in Grep
+3. Semantic/unknown location → smart_search
+4. Large codebase + repeated searches → codex_lens
+
+## Decision Triggers
+
+**Start with simplest tool** (Read, Edit, Grep)
+**Escalate to MCP tools** when built-ins fail or inappropriate
+**Use semantic search** for exploratory tasks
+**Use indexed search** for large, stable codebases
+**Use Exa** for external/public knowledge

.claude/workflows/context-search-strategy.md

@@ -1,9 +1,3 @@
----
-name: context-search-strategy
-description: Strategic guidelines for context search commands
-type: search-guideline
----
-
 # Context Search Strategy
 
 ## ⚡ Execution Environment

.claude/workflows/tool-strategy.md

@@ -1,88 +1,216 @@
-# Tool Strategy
+# Tool Strategy - When to Use What
 
-## ⚡ Exa Triggering Mechanisms
+> **Focus**: Decision triggers and selection logic, NOT syntax (already registered with Claude)
 
-**Auto-Trigger**:
-- User mentions "exa-code" or code-related queries → `mcp__exa__get_code_context_exa`
-- Need current web information → `mcp__exa__web_search_exa`
-
-**Manual Trigger**:
-- Complex API research → Exa Code Context
-- Real-time information needs → Exa Web Search
-
-## ⚡ CCW MCP Tools
-
-
-### edit_file
-
-**When to Use**: Edit tool fails 1+ times on same file
+## Quick Decision Tree
 
 ```
-mcp__ccw-tools__edit_file(path="file.py", oldText="old", newText="new")
-mcp__ccw-tools__edit_file(path="file.py", oldText="old", newText="new", dryRun=true)
-mcp__ccw-tools__edit_file(path="file.py", oldText="old", newText="new", replaceAll=true)
-mcp__ccw-tools__edit_file(path="file.py", mode="line", operation="insert_after", line=10, text="new line")
+Need context?
+├─ Exa available? → Use Exa (fastest, most comprehensive)
+├─ Large codebase (>500 files)? → codex_lens
+├─ Known files (<5)? → Read tool
+└─ Unknown files? → smart_search → Read tool
+
+Need to modify files?
+├─ Built-in Edit fails? → mcp__ccw-tools__edit_file
+└─ Still fails? → mcp__ccw-tools__write_file
+
+Need to search?
+├─ Semantic/concept search? → smart_search (mode=semantic)
+├─ Exact pattern match? → Grep tool
+└─ Multiple search modes needed? → smart_search (mode=auto)
 ```
 
-**Options**: `dryRun` (preview diff), `replaceAll`, `mode` (update|line), `operation`, `line`, `text`
+---
 
-### write_file
+## 1. Context Gathering Tools
 
-**When to Use**: Create new files or overwrite existing content
+### Exa (`mcp__exa__get_code_context_exa`)
+
+**Use When**:
+- ✅ Researching external APIs, libraries, frameworks
+- ✅ Need recent documentation (post-cutoff knowledge)
+- ✅ Looking for implementation examples in public repos
+- ✅ Comparing architectural patterns across projects
+
+**Don't Use When**:
+- ❌ Searching internal codebase (use smart_search/codex_lens)
+- ❌ Files already in working directory (use Read)
+
+**Trigger Indicators**:
+- User mentions specific library/framework names
+- Questions about "best practices", "how does X work"
+- Need to verify current API signatures
+
+---
+
+### read_file (`mcp__ccw-tools__read_file`)
+
+**Use When**:
+- ✅ Reading multiple related files at once (batch reading)
+- ✅ Need directory traversal with pattern matching
+- ✅ Searching file content with regex (`contentPattern`)
+- ✅ Want to limit depth/file count for large directories
+
+**Don't Use When**:
+- ❌ Single file read → Use built-in Read tool (faster)
+- ❌ Unknown file locations → Use smart_search first
+- ❌ Need semantic search → Use smart_search or codex_lens
+
+**Trigger Indicators**:
+- Need to read "all TypeScript files in src/"
+- Need to find "files containing TODO comments"
+- Want to read "up to 20 config files"
+
+**Advantages over Built-in Read**:
+- Batch operation (multiple files in one call)
+- Pattern-based filtering (glob + content regex)
+- Directory traversal with depth control
+
+---
+
+### codex_lens (`mcp__ccw-tools__codex_lens`)
+
+**Use When**:
+- ✅ Large codebase (>500 files) requiring repeated searches
+- ✅ Need semantic understanding of code relationships
+- ✅ Working across multiple sessions (persistent index)
+- ✅ Symbol-level navigation needed
+
+**Don't Use When**:
+- ❌ Small project (<100 files) → Use smart_search (no indexing overhead)
+- ❌ One-time search → Use smart_search or Grep
+- ❌ Files change frequently → Indexing overhead not worth it
+
+**Trigger Indicators**:
+- "Find all implementations of interface X"
+- "What calls this function across the codebase?"
+- Multi-session workflow on same codebase
+
+**Action Selection**:
+- `init`: First time in new codebase
+- `search`: Find code patterns
+- `search_files`: Find files by path/name pattern
+- `symbol`: Get symbols in specific file
+- `status`: Check if index exists/is stale
+- `clean`: Remove stale index
+
+---
+
+### smart_search (`mcp__ccw-tools__smart_search`)
+
+**Use When**:
+- ✅ Don't know exact file locations
+- ✅ Need concept/semantic search ("authentication logic")
+- ✅ Medium-sized codebase (100-500 files)
+- ✅ One-time or infrequent searches
+
+**Don't Use When**:
+- ❌ Known exact file path → Use Read directly
+- ❌ Large codebase + repeated searches → Use codex_lens
+- ❌ Exact pattern match → Use Grep (faster)
+
+**Mode Selection**:
+- `auto`: Let tool decide (default, safest)
+- `exact`: Know exact pattern, need fast results
+- `fuzzy`: Typo-tolerant file/symbol names
+- `semantic`: Concept-based ("error handling", "data validation")
+- `graph`: Dependency/relationship analysis
+
+**Trigger Indicators**:
+- "Find files related to user authentication"
+- "Where is the payment processing logic?"
+- "Locate database connection setup"
+
+---
+
+## 2. File Modification Tools
+
+### edit_file (`mcp__ccw-tools__edit_file`)
+
+**Use When**:
+- ✅ Built-in Edit tool failed 1+ times
+- ✅ Need dry-run preview before applying
+- ✅ Need line-based operations (insert_after, insert_before)
+- ✅ Need to replace all occurrences
+
+**Don't Use When**:
+- ❌ Built-in Edit hasn't failed yet → Try built-in first
+- ❌ Need to create new file → Use write_file
+
+**Trigger Indicators**:
+- Built-in Edit returns "old_string not found"
+- Built-in Edit fails due to whitespace/formatting
+- Need to verify changes before applying (dryRun=true)
+
+**Mode Selection**:
+- `mode=update`: Replace text (similar to built-in Edit)
+- `mode=line`: Line-based operations (insert_after, insert_before, delete)
+
+---
+
+### write_file (`mcp__ccw-tools__write_file`)
+
+**Use When**:
+- ✅ Creating brand new files
+- ✅ MCP edit_file still fails (last resort)
+- ✅ Need to completely replace file content
+- ✅ Need backup before overwriting
+
+**Don't Use When**:
+- ❌ File exists + small change → Use Edit tools
+- ❌ Built-in Edit hasn't been tried → Try built-in Edit first
+
+**Trigger Indicators**:
+- All Edit attempts failed
+- Need to create new file with specific content
+- User explicitly asks to "recreate file"
+
+---
+
+## 3. Decision Logic
+
+### File Reading Priority
 
 ```
-mcp__ccw-tools__write_file(path="file.txt", content="Hello")
-mcp__ccw-tools__write_file(path="file.txt", content="code with `backticks` and ${vars}", backup=true)
+1. Known single file? → Built-in Read
+2. Multiple files OR pattern matching? → mcp__ccw-tools__read_file
+3. Unknown location? → smart_search, then Read
+4. Large codebase + repeated access? → codex_lens
 ```
 
-**Options**: `backup`, `createDirectories`, `encoding`
-
-### read_file
-
-**When to Use**: Read multiple files, directory traversal, content search
+### File Editing Priority
 
 ```
-mcp__ccw-tools__read_file(paths="file.ts")                         # Single file
-mcp__ccw-tools__read_file(paths=["a.ts", "b.ts"])                  # Multiple files
-mcp__ccw-tools__read_file(paths="src/", pattern="*.ts")            # Directory + glob
-mcp__ccw-tools__read_file(paths="src/", contentPattern="TODO")     # Regex search
+1. Always try built-in Edit first
+2. Fails 1+ times? → mcp__ccw-tools__edit_file
+3. Still fails? → mcp__ccw-tools__write_file (last resort)
 ```
 
-**Options**: `pattern`, `contentPattern`, `maxDepth` (3), `includeContent` (true), `maxFiles` (50)
-
-### codex_lens
-
-**When to Use**: Code indexing, semantic search, cache management
+### Search Tool Priority
 
 ```
-mcp__ccw-tools__codex_lens(action="init", path=".")
-mcp__ccw-tools__codex_lens(action="search", query="function main", path=".")
-mcp__ccw-tools__codex_lens(action="search_files", query="pattern", limit=20)
-mcp__ccw-tools__codex_lens(action="symbol", file="src/main.py")
-mcp__ccw-tools__codex_lens(action="status")
-mcp__ccw-tools__codex_lens(action="config_show")
-mcp__ccw-tools__codex_lens(action="config_set", key="index_dir", value="/path")
-mcp__ccw-tools__codex_lens(action="config_migrate", newPath="/new/path")
-mcp__ccw-tools__codex_lens(action="clean", path=".")
-mcp__ccw-tools__codex_lens(action="clean", all=true)
+1. External knowledge? → Exa
+2. Exact pattern in small codebase? → Built-in Grep
+3. Semantic/unknown location? → smart_search
+4. Large codebase + repeated searches? → codex_lens
 ```
 
-**Actions**: `init`, `search`, `search_files`, `symbol`, `status`, `config_show`, `config_set`, `config_migrate`, `clean`
+---
 
-### smart_search
+## 4. Anti-Patterns
 
-**When to Use**: Quick search without indexing, natural language queries
+**Don't**:
+- Use codex_lens for one-time searches in small projects
+- Use smart_search when file path is already known
+- Use write_file before trying Edit tools
+- Use Exa for internal codebase searches
+- Use read_file for single file when Read tool works
 
-```
-mcp__ccw-tools__smart_search(query="function main", path=".")
-mcp__ccw-tools__smart_search(query="def init", mode="exact")
-mcp__ccw-tools__smart_search(query="authentication logic", mode="semantic")
-```
-
-**Modes**: `auto` (default), `exact`, `fuzzy`, `semantic`, `graph`
-
-### Fallback Strategy
-
-1. **Edit fails 1+ times** → `mcp__ccw-tools__edit_file`
-2. **Still fails** → `mcp__ccw-tools__write_file`
+**Do**:
+- Start with simplest tool (Read, Edit, Grep)
+- Escalate to MCP tools when built-ins fail
+- Use semantic search (smart_search) for exploratory tasks
+- Use indexed search (codex_lens) for large, stable codebases
+- Use Exa for external/public knowledge
 

ccw/src/core/lite-scanner-complete.ts

@@ -0,0 +1,469 @@
+import { existsSync, readdirSync, readFileSync, statSync } from 'fs';
+import { join } from 'path';
+
+interface TaskMeta {
+  type: string;
+  agent: string | null;
+  scope: string | null;
+  module: string | null;
+}
+
+interface TaskContext {
+  requirements: string[];
+  focus_paths: string[];
+  acceptance: string[];
+  depends_on: string[];
+}
+
+interface TaskFlowControl {
+  implementation_approach: Array<{
+    step: string;
+    action: string;
+  }>;
+}
+
+interface NormalizedTask {
+  id: string;
+  title: string;
+  status: string;
+  meta: TaskMeta;
+  context: TaskContext;
+  flow_control: TaskFlowControl;
+  _raw: unknown;
+}
+
+interface Progress {
+  total: number;
+  completed: number;
+  percentage: number;
+}
+
+interface DiagnosisItem {
+  id: string;
+  filename: string;
+  [key: string]: unknown;
+}
+
+interface Diagnoses {
+  manifest: unknown | null;
+  items: DiagnosisItem[];
+}
+
+interface LiteSession {
+  id: string;
+  type: string;
+  path: string;
+  createdAt: string;
+  plan: unknown | null;
+  tasks: NormalizedTask[];
+  diagnoses?: Diagnoses;
+  progress: Progress;
+}
+
+interface LiteTasks {
+  litePlan: LiteSession[];
+  liteFix: LiteSession[];
+}
+
+interface LiteTaskDetail {
+  id: string;
+  type: string;
+  path: string;
+  plan: unknown | null;
+  tasks: NormalizedTask[];
+  explorations: unknown[];
+  clarifications: unknown | null;
+  diagnoses?: Diagnoses;
+}
+
+/**
+ * Scan lite-plan and lite-fix directories for task sessions
+ * @param workflowDir - Path to .workflow directory
+ * @returns Lite tasks data
+ */
+export async function scanLiteTasks(workflowDir: string): Promise<LiteTasks> {
+  const litePlanDir = join(workflowDir, '.lite-plan');
+  const liteFixDir = join(workflowDir, '.lite-fix');
+
+  return {
+    litePlan: scanLiteDir(litePlanDir, 'lite-plan'),
+    liteFix: scanLiteDir(liteFixDir, 'lite-fix')
+  };
+}
+
+/**
+ * Scan a lite task directory
+ * @param dir - Directory path
+ * @param type - Task type ('lite-plan' or 'lite-fix')
+ * @returns Array of lite task sessions
+ */
+function scanLiteDir(dir: string, type: string): LiteSession[] {
+  if (!existsSync(dir)) return [];
+
+  try {
+    const sessions = readdirSync(dir, { withFileTypes: true })
+      .filter(d => d.isDirectory())
+      .map(d => {
+        const sessionPath = join(dir, d.name);
+        const session: LiteSession = {
+          id: d.name,
+          type,
+          path: sessionPath,
+          createdAt: getCreatedTime(sessionPath),
+          plan: loadPlanJson(sessionPath),
+          tasks: loadTaskJsons(sessionPath),
+          progress: { total: 0, completed: 0, percentage: 0 }
+        };
+
+        // For lite-fix sessions, also load diagnoses separately
+        if (type === 'lite-fix') {
+          session.diagnoses = loadDiagnoses(sessionPath);
+        }
+
+        // Calculate progress
+        session.progress = calculateProgress(session.tasks);
+
+        return session;
+      })
+      .sort((a, b) => new Date(b.createdAt).getTime() - new Date(a.createdAt).getTime());
+
+    return sessions;
+  } catch (err) {
+    console.error(`Error scanning ${dir}:`, (err as Error).message);
+    return [];
+  }
+}
+
+/**
+ * Load plan.json or fix-plan.json from session directory
+ * @param sessionPath - Session directory path
+ * @returns Plan data or null
+ */
+function loadPlanJson(sessionPath: string): unknown | null {
+  // Try fix-plan.json first (for lite-fix), then plan.json (for lite-plan)
+  const fixPlanPath = join(sessionPath, 'fix-plan.json');
+  const planPath = join(sessionPath, 'plan.json');
+
+  // Try fix-plan.json first
+  if (existsSync(fixPlanPath)) {
+    try {
+      const content = readFileSync(fixPlanPath, 'utf8');
+      return JSON.parse(content);
+    } catch {
+      // Continue to try plan.json
+    }
+  }
+
+  // Fallback to plan.json
+  if (existsSync(planPath)) {
+    try {
+      const content = readFileSync(planPath, 'utf8');
+      return JSON.parse(content);
+    } catch {
+      return null;
+    }
+  }
+
+  return null;
+}
+
+/**
+ * Load all task JSON files from session directory
+ * Supports multiple task formats:
+ * 1. .task/IMPL-*.json files
+ * 2. tasks array in plan.json
+ * 3. task-*.json files in session root
+ * @param sessionPath - Session directory path
+ * @returns Array of task objects
+ */
+function loadTaskJsons(sessionPath: string): NormalizedTask[] {
+  let tasks: NormalizedTask[] = [];
+
+  // Method 1: Check .task/IMPL-*.json files
+  const taskDir = join(sessionPath, '.task');
+  if (existsSync(taskDir)) {
+    try {
+      const implTasks = readdirSync(taskDir)
+        .filter(f => f.endsWith('.json') && (
+          f.startsWith('IMPL-') ||
+          f.startsWith('TASK-') ||
+          f.startsWith('task-') ||
+          f.startsWith('diagnosis-') ||
+          /^T\d+\.json$/i.test(f)
+        ))
+        .map(f => {
+          const taskPath = join(taskDir, f);
+          try {
+            const content = readFileSync(taskPath, 'utf8');
+            return normalizeTask(JSON.parse(content));
+          } catch {
+            return null;
+          }
+        })
+        .filter((t): t is NormalizedTask => t !== null);
+      tasks = tasks.concat(implTasks);
+    } catch {
+      // Continue to other methods
+    }
+  }
+
+  // Method 2: Check plan.json or fix-plan.json for embedded tasks array
+  if (tasks.length === 0) {
+    // Try fix-plan.json first (for lite-fix), then plan.json (for lite-plan)
+    const fixPlanPath = join(sessionPath, 'fix-plan.json');
+    const planPath = join(sessionPath, 'plan.json');
+
+    const planFile = existsSync(fixPlanPath) ? fixPlanPath :
+                     existsSync(planPath) ? planPath : null;
+
+    if (planFile) {
+      try {
+        const plan = JSON.parse(readFileSync(planFile, 'utf8')) as { tasks?: unknown[] };
+        if (Array.isArray(plan.tasks)) {
+          tasks = plan.tasks.map(t => normalizeTask(t)).filter((t): t is NormalizedTask => t !== null);
+        }
+      } catch {
+        // Continue to other methods
+      }
+    }
+  }
+
+  // Method 3: Check for task-*.json and diagnosis-*.json files in session root
+  if (tasks.length === 0) {
+    try {
+      const rootTasks = readdirSync(sessionPath)
+        .filter(f => f.endsWith('.json') && (
+          f.startsWith('task-') ||
+          f.startsWith('TASK-') ||
+          f.startsWith('diagnosis-') ||
+          /^T\d+\.json$/i.test(f)
+        ))
+        .map(f => {
+          const taskPath = join(sessionPath, f);
+          try {
+            const content = readFileSync(taskPath, 'utf8');
+            return normalizeTask(JSON.parse(content));
+          } catch {
+            return null;
+          }
+        })
+        .filter((t): t is NormalizedTask => t !== null);
+      tasks = tasks.concat(rootTasks);
+    } catch {
+      // No tasks found
+    }
+  }
+
+  // Sort tasks by ID
+  return tasks.sort((a, b) => {
+    const aNum = parseInt(a.id?.replace(/\D/g, '') || '0');
+    const bNum = parseInt(b.id?.replace(/\D/g, '') || '0');
+    return aNum - bNum;
+  });
+}
+
+/**
+ * Normalize task object to consistent structure
+ * @param task - Raw task object
+ * @returns Normalized task
+ */
+function normalizeTask(task: unknown): NormalizedTask | null {
+  if (!task || typeof task !== 'object') return null;
+
+  const taskObj = task as Record<string, unknown>;
+
+  // Determine status - support various status formats
+  let status = (taskObj.status as string | { state?: string; value?: string }) || 'pending';
+  if (typeof status === 'object') {
+    status = status.state || status.value || 'pending';
+  }
+
+  const meta = taskObj.meta as Record<string, unknown> | undefined;
+  const context = taskObj.context as Record<string, unknown> | undefined;
+  const flowControl = taskObj.flow_control as Record<string, unknown> | undefined;
+  const implementation = taskObj.implementation as unknown[] | undefined;
+  const modificationPoints = taskObj.modification_points as Array<{ file?: string }> | undefined;
+
+  return {
+    id: (taskObj.id as string) || (taskObj.task_id as string) || 'unknown',
+    title: (taskObj.title as string) || (taskObj.name as string) || (taskObj.summary as string) || 'Untitled Task',
+    status: (status as string).toLowerCase(),
+    // Preserve original fields for flexible rendering
+    meta: meta ? {
+      type: (meta.type as string) || (taskObj.type as string) || (taskObj.action as string) || 'task',
+      agent: (meta.agent as string) || (taskObj.agent as string) || null,
+      scope: (meta.scope as string) || (taskObj.scope as string) || null,
+      module: (meta.module as string) || (taskObj.module as string) || null
+    } : {
+      type: (taskObj.type as string) || (taskObj.action as string) || 'task',
+      agent: (taskObj.agent as string) || null,
+      scope: (taskObj.scope as string) || null,
+      module: (taskObj.module as string) || null
+    },
+    context: context ? {
+      requirements: (context.requirements as string[]) || [],
+      focus_paths: (context.focus_paths as string[]) || [],
+      acceptance: (context.acceptance as string[]) || [],
+      depends_on: (context.depends_on as string[]) || []
+    } : {
+      requirements: (taskObj.requirements as string[]) || (taskObj.description ? [taskObj.description as string] : []),
+      focus_paths: (taskObj.focus_paths as string[]) || modificationPoints?.map(m => m.file).filter((f): f is string => !!f) || [],
+      acceptance: (taskObj.acceptance as string[]) || [],
+      depends_on: (taskObj.depends_on as string[]) || []
+    },
+    flow_control: flowControl ? {
+      implementation_approach: (flowControl.implementation_approach as Array<{ step: string; action: string }>) || []
+    } : {
+      implementation_approach: implementation?.map((step, i) => ({
+        step: `Step ${i + 1}`,
+        action: step as string
+      })) || []
+    },
+    // Keep all original fields for raw JSON view
+    _raw: task
+  };
+}
+
+/**
+ * Get directory creation time
+ * @param dirPath - Directory path
+ * @returns ISO date string
+ */
+function getCreatedTime(dirPath: string): string {
+  try {
+    const stat = statSync(dirPath);
+    return stat.birthtime.toISOString();
+  } catch {
+    return new Date().toISOString();
+  }
+}
+
+/**
+ * Calculate progress from tasks
+ * @param tasks - Array of task objects
+ * @returns Progress info
+ */
+function calculateProgress(tasks: NormalizedTask[]): Progress {
+  if (!tasks || tasks.length === 0) {
+    return { total: 0, completed: 0, percentage: 0 };
+  }
+
+  const total = tasks.length;
+  const completed = tasks.filter(t => t.status === 'completed').length;
+  const percentage = Math.round((completed / total) * 100);
+
+  return { total, completed, percentage };
+}
+
+/**
+ * Get detailed lite task info
+ * @param workflowDir - Workflow directory
+ * @param type - 'lite-plan' or 'lite-fix'
+ * @param sessionId - Session ID
+ * @returns Detailed task info
+ */
+export function getLiteTaskDetail(workflowDir: string, type: string, sessionId: string): LiteTaskDetail | null {
+  const dir = type === 'lite-plan'
+    ? join(workflowDir, '.lite-plan', sessionId)
+    : join(workflowDir, '.lite-fix', sessionId);
+
+  if (!existsSync(dir)) return null;
+
+  const detail: LiteTaskDetail = {
+    id: sessionId,
+    type,
+    path: dir,
+    plan: loadPlanJson(dir),
+    tasks: loadTaskJsons(dir),
+    explorations: loadExplorations(dir),
+    clarifications: loadClarifications(dir)
+  };
+
+  // For lite-fix sessions, also load diagnoses
+  if (type === 'lite-fix') {
+    detail.diagnoses = loadDiagnoses(dir);
+  }
+
+  return detail;
+}
+
+/**
+ * Load exploration results
+ * @param sessionPath - Session directory path
+ * @returns Exploration results
+ */
+function loadExplorations(sessionPath: string): unknown[] {
+  const explorePath = join(sessionPath, 'explorations.json');
+  if (!existsSync(explorePath)) return [];
+
+  try {
+    const content = readFileSync(explorePath, 'utf8');
+    return JSON.parse(content);
+  } catch {
+    return [];
+  }
+}
+
+/**
+ * Load clarification data
+ * @param sessionPath - Session directory path
+ * @returns Clarification data
+ */
+function loadClarifications(sessionPath: string): unknown | null {
+  const clarifyPath = join(sessionPath, 'clarifications.json');
+  if (!existsSync(clarifyPath)) return null;
+
+  try {
+    const content = readFileSync(clarifyPath, 'utf8');
+    return JSON.parse(content);
+  } catch {
+    return null;
+  }
+}
+
+/**
+ * Load diagnosis files for lite-fix sessions
+ * Loads diagnosis-*.json files from session root directory
+ * @param sessionPath - Session directory path
+ * @returns Diagnoses data with manifest and items
+ */
+function loadDiagnoses(sessionPath: string): Diagnoses {
+  const result: Diagnoses = {
+    manifest: null,
+    items: []
+  };
+
+  // Try to load diagnoses-manifest.json first
+  const manifestPath = join(sessionPath, 'diagnoses-manifest.json');
+  if (existsSync(manifestPath)) {
+    try {
+      result.manifest = JSON.parse(readFileSync(manifestPath, 'utf8'));
+    } catch {
+      // Continue without manifest
+    }
+  }
+
+  // Load all diagnosis-*.json files from session root
+  try {
+    const diagnosisFiles = readdirSync(sessionPath)
+      .filter(f => f.startsWith('diagnosis-') && f.endsWith('.json'));
+
+    for (const file of diagnosisFiles) {
+      const filePath = join(sessionPath, file);
+      try {
+        const content = JSON.parse(readFileSync(filePath, 'utf8')) as Record<string, unknown>;
+        result.items.push({
+          id: file.replace('diagnosis-', '').replace('.json', ''),
+          filename: file,
+          ...content
+        });
+      } catch {
+        // Skip invalid files
+      }
+    }
+  } catch {
+    // Return empty items if directory read fails
+  }
+
+  return result;
+}

ccw/src/core/routes/ccw-routes.ts

@@ -0,0 +1,96 @@
+// @ts-nocheck
+/**
+ * CCW Routes Module
+ * Handles all CCW-related API endpoints
+ */
+import type { IncomingMessage, ServerResponse } from 'http';
+import { getAllManifests } from '../manifest.js';
+import { listTools } from '../../tools/index.js';
+
+export interface RouteContext {
+  pathname: string;
+  url: URL;
+  req: IncomingMessage;
+  res: ServerResponse;
+  initialPath: string;
+  handlePostRequest: (req: IncomingMessage, res: ServerResponse, handler: (body: unknown) => Promise<any>) => void;
+  broadcastToClients: (data: unknown) => void;
+}
+
+/**
+ * Handle CCW routes
+ * @returns true if route was handled, false otherwise
+ */
+export async function handleCcwRoutes(ctx: RouteContext): Promise<boolean> {
+  const { pathname, url, req, res, initialPath, handlePostRequest, broadcastToClients } = ctx;
+
+  // API: CCW Installation Status
+  if (pathname === '/api/ccw/installations') {
+    const manifests = getAllManifests();
+    res.writeHead(200, { 'Content-Type': 'application/json' });
+    res.end(JSON.stringify({ installations: manifests }));
+    return true;
+  }
+
+  // API: CCW Endpoint Tools List
+  if (pathname === '/api/ccw/tools') {
+    const tools = listTools();
+    res.writeHead(200, { 'Content-Type': 'application/json' });
+    res.end(JSON.stringify({ tools }));
+    return true;
+  }
+
+  // API: CCW Upgrade
+  if (pathname === '/api/ccw/upgrade' && req.method === 'POST') {
+    handlePostRequest(req, res, async (body) => {
+      const { path: installPath } = body;
+
+      try {
+        const { spawn } = await import('child_process');
+
+        // Run ccw upgrade command
+        const args = installPath ? ['upgrade', '--all'] : ['upgrade', '--all'];
+        const upgradeProcess = spawn('ccw', args, {
+          shell: true,
+          stdio: ['ignore', 'pipe', 'pipe']
+        });
+
+        let stdout = '';
+        let stderr = '';
+
+        upgradeProcess.stdout.on('data', (data) => {
+          stdout += data.toString();
+        });
+
+        upgradeProcess.stderr.on('data', (data) => {
+          stderr += data.toString();
+        });
+
+        return new Promise((resolve) => {
+          upgradeProcess.on('close', (code) => {
+            if (code === 0) {
+              resolve({ success: true, message: 'Upgrade completed', output: stdout });
+            } else {
+              resolve({ success: false, error: stderr || 'Upgrade failed', output: stdout, status: 500 });
+            }
+          });
+
+          upgradeProcess.on('error', (err) => {
+            resolve({ success: false, error: err.message, status: 500 });
+          });
+
+          // Timeout after 2 minutes
+          setTimeout(() => {
+            upgradeProcess.kill();
+            resolve({ success: false, error: 'Upgrade timed out', status: 504 });
+          }, 120000);
+        });
+      } catch (err) {
+        return { success: false, error: err.message, status: 500 };
+      }
+    });
+    return true;
+  }
+
+  return false;
+}

ccw/src/core/routes/cli-routes.ts

@@ -0,0 +1,561 @@
+// @ts-nocheck
+/**
+ * CLI Routes Module
+ * Handles all CLI-related API endpoints
+ */
+import type { IncomingMessage, ServerResponse } from 'http';
+import {
+  getCliToolsStatus,
+  getCliToolsFullStatus,
+  installCliTool,
+  uninstallCliTool,
+  enableCliTool,
+  disableCliTool,
+  getExecutionHistory,
+  getExecutionHistoryAsync,
+  getExecutionDetail,
+  getConversationDetail,
+  getConversationDetailWithNativeInfo,
+  deleteExecution,
+  deleteExecutionAsync,
+  batchDeleteExecutionsAsync,
+  executeCliTool,
+  getNativeSessionContent,
+  getFormattedNativeConversation,
+  getEnrichedConversation,
+  getHistoryWithNativeInfo
+} from '../../tools/cli-executor.js';
+import { generateSmartContext, formatSmartContext } from '../../tools/smart-context.js';
+import {
+  loadCliConfig,
+  getToolConfig,
+  updateToolConfig,
+  getFullConfigResponse,
+  PREDEFINED_MODELS
+} from '../../tools/cli-config-manager.js';
+
+export interface RouteContext {
+  pathname: string;
+  url: URL;
+  req: IncomingMessage;
+  res: ServerResponse;
+  initialPath: string;
+  handlePostRequest: (req: IncomingMessage, res: ServerResponse, handler: (body: unknown) => Promise<any>) => void;
+  broadcastToClients: (data: unknown) => void;
+}
+
+/**
+ * Handle CLI routes
+ * @returns true if route was handled, false otherwise
+ */
+export async function handleCliRoutes(ctx: RouteContext): Promise<boolean> {
+  const { pathname, url, req, res, initialPath, handlePostRequest, broadcastToClients } = ctx;
+
+  // API: CLI Tools Status
+  if (pathname === '/api/cli/status') {
+    const status = await getCliToolsStatus();
+    res.writeHead(200, { 'Content-Type': 'application/json' });
+    res.end(JSON.stringify(status));
+    return true;
+  }
+
+  // API: CLI Tools Full Status (with enabled state)
+  if (pathname === '/api/cli/full-status') {
+    const status = await getCliToolsFullStatus();
+    res.writeHead(200, { 'Content-Type': 'application/json' });
+    res.end(JSON.stringify(status));
+    return true;
+  }
+
+  // API: Install CLI Tool
+  if (pathname === '/api/cli/install' && req.method === 'POST') {
+    handlePostRequest(req, res, async (body: unknown) => {
+      const { tool } = body as { tool: string };
+      if (!tool) {
+        return { error: 'Tool name is required', status: 400 };
+      }
+
+      const result = await installCliTool(tool);
+      if (result.success) {
+        // Broadcast tool installed event
+        broadcastToClients({
+          type: 'CLI_TOOL_INSTALLED',
+          payload: { tool, timestamp: new Date().toISOString() }
+        });
+        return { success: true, message: `${tool} installed successfully` };
+      } else {
+        return { success: false, error: result.error, status: 500 };
+      }
+    });
+    return true;
+  }
+
+  // API: Uninstall CLI Tool
+  if (pathname === '/api/cli/uninstall' && req.method === 'POST') {
+    handlePostRequest(req, res, async (body: unknown) => {
+      const { tool } = body as { tool: string };
+      if (!tool) {
+        return { error: 'Tool name is required', status: 400 };
+      }
+
+      const result = await uninstallCliTool(tool);
+      if (result.success) {
+        // Broadcast tool uninstalled event
+        broadcastToClients({
+          type: 'CLI_TOOL_UNINSTALLED',
+          payload: { tool, timestamp: new Date().toISOString() }
+        });
+        return { success: true, message: `${tool} uninstalled successfully` };
+      } else {
+        return { success: false, error: result.error, status: 500 };
+      }
+    });
+    return true;
+  }
+
+  // API: Enable CLI Tool
+  if (pathname === '/api/cli/enable' && req.method === 'POST') {
+    handlePostRequest(req, res, async (body: unknown) => {
+      const { tool } = body as { tool: string };
+      if (!tool) {
+        return { error: 'Tool name is required', status: 400 };
+      }
+
+      const result = enableCliTool(tool);
+      // Broadcast tool enabled event
+      broadcastToClients({
+        type: 'CLI_TOOL_ENABLED',
+        payload: { tool, timestamp: new Date().toISOString() }
+      });
+      return { success: true, message: `${tool} enabled` };
+    });
+    return true;
+  }
+
+  // API: Disable CLI Tool
+  if (pathname === '/api/cli/disable' && req.method === 'POST') {
+    handlePostRequest(req, res, async (body: unknown) => {
+      const { tool } = body as { tool: string };
+      if (!tool) {
+        return { error: 'Tool name is required', status: 400 };
+      }
+
+      const result = disableCliTool(tool);
+      // Broadcast tool disabled event
+      broadcastToClients({
+        type: 'CLI_TOOL_DISABLED',
+        payload: { tool, timestamp: new Date().toISOString() }
+      });
+      return { success: true, message: `${tool} disabled` };
+    });
+    return true;
+  }
+
+  // API: Get Full CLI Config (with predefined models)
+  if (pathname === '/api/cli/config' && req.method === 'GET') {
+    try {
+      const response = getFullConfigResponse(initialPath);
+      res.writeHead(200, { 'Content-Type': 'application/json' });
+      res.end(JSON.stringify(response));
+    } catch (err) {
+      res.writeHead(500, { 'Content-Type': 'application/json' });
+      res.end(JSON.stringify({ error: (err as Error).message }));
+    }
+    return true;
+  }
+
+  // API: Get/Update Tool Config
+  const configMatch = pathname.match(/^\/api\/cli\/config\/(gemini|qwen|codex)$/);
+  if (configMatch) {
+    const tool = configMatch[1];
+
+    // GET: Get single tool config
+    if (req.method === 'GET') {
+      try {
+        const toolConfig = getToolConfig(initialPath, tool);
+        res.writeHead(200, { 'Content-Type': 'application/json' });
+        res.end(JSON.stringify(toolConfig));
+      } catch (err) {
+        res.writeHead(500, { 'Content-Type': 'application/json' });
+        res.end(JSON.stringify({ error: (err as Error).message }));
+      }
+      return true;
+    }
+
+    // PUT: Update tool config
+    if (req.method === 'PUT') {
+      handlePostRequest(req, res, async (body: unknown) => {
+        try {
+          const updates = body as { enabled?: boolean; primaryModel?: string; secondaryModel?: string };
+          const updated = updateToolConfig(initialPath, tool, updates);
+
+          // Broadcast config updated event
+          broadcastToClients({
+            type: 'CLI_CONFIG_UPDATED',
+            payload: { tool, config: updated, timestamp: new Date().toISOString() }
+          });
+
+          return { success: true, config: updated };
+        } catch (err) {
+          return { error: (err as Error).message, status: 500 };
+        }
+      });
+      return true;
+    }
+  }
+
+  // API: CLI Execution History
+  if (pathname === '/api/cli/history') {
+    const projectPath = url.searchParams.get('path') || initialPath;
+    const limit = parseInt(url.searchParams.get('limit') || '50', 10);
+    const tool = url.searchParams.get('tool') || null;
+    const status = url.searchParams.get('status') || null;
+    const category = url.searchParams.get('category') as 'user' | 'internal' | 'insight' | null;
+    const search = url.searchParams.get('search') || null;
+    const recursive = url.searchParams.get('recursive') !== 'false';
+
+    getExecutionHistoryAsync(projectPath, { limit, tool, status, category, search, recursive })
+      .then(history => {
+        res.writeHead(200, { 'Content-Type': 'application/json' });
+        res.end(JSON.stringify(history));
+      })
+      .catch(err => {
+        res.writeHead(500, { 'Content-Type': 'application/json' });
+        res.end(JSON.stringify({ error: err.message }));
+      });
+    return true;
+  }
+
+  // API: CLI Execution Detail (GET) or Delete (DELETE)
+  if (pathname === '/api/cli/execution') {
+    const projectPath = url.searchParams.get('path') || initialPath;
+    const executionId = url.searchParams.get('id');
+
+    if (!executionId) {
+      res.writeHead(400, { 'Content-Type': 'application/json' });
+      res.end(JSON.stringify({ error: 'Execution ID is required' }));
+      return true;
+    }
+
+    // Handle DELETE request
+    if (req.method === 'DELETE') {
+      deleteExecutionAsync(projectPath, executionId)
+        .then(result => {
+          if (result.success) {
+            res.writeHead(200, { 'Content-Type': 'application/json' });
+            res.end(JSON.stringify({ success: true, message: 'Execution deleted' }));
+          } else {
+            res.writeHead(500, { 'Content-Type': 'application/json' });
+            res.end(JSON.stringify({ error: result.error || 'Delete failed' }));
+          }
+        })
+        .catch(err => {
+          res.writeHead(500, { 'Content-Type': 'application/json' });
+          res.end(JSON.stringify({ error: err.message }));
+        });
+      return true;
+    }
+
+    // Handle GET request - return conversation with native session info
+    const conversation = getConversationDetailWithNativeInfo(projectPath, executionId);
+    if (!conversation) {
+      res.writeHead(404, { 'Content-Type': 'application/json' });
+      res.end(JSON.stringify({ error: 'Conversation not found' }));
+      return true;
+    }
+
+    res.writeHead(200, { 'Content-Type': 'application/json' });
+    res.end(JSON.stringify(conversation));
+    return true;
+  }
+
+  // API: Batch Delete CLI Executions
+  if (pathname === '/api/cli/batch-delete' && req.method === 'POST') {
+    handlePostRequest(req, res, async (body) => {
+      const { path: projectPath, ids } = body as { path?: string; ids: string[] };
+
+      if (!ids || !Array.isArray(ids) || ids.length === 0) {
+        return { error: 'ids array is required', status: 400 };
+      }
+
+      const basePath = projectPath || initialPath;
+      return await batchDeleteExecutionsAsync(basePath, ids);
+    });
+    return true;
+  }
+
+  // API: Get Native Session Content
+  if (pathname === '/api/cli/native-session') {
+    const projectPath = url.searchParams.get('path') || initialPath;
+    const executionId = url.searchParams.get('id');
+    const format = url.searchParams.get('format') || 'json';
+
+    if (!executionId) {
+      res.writeHead(400, { 'Content-Type': 'application/json' });
+      res.end(JSON.stringify({ error: 'Execution ID is required' }));
+      return true;
+    }
+
+    try {
+      let result;
+      if (format === 'text') {
+        result = await getFormattedNativeConversation(projectPath, executionId, {
+          includeThoughts: url.searchParams.get('thoughts') === 'true',
+          includeToolCalls: url.searchParams.get('tools') === 'true',
+          includeTokens: url.searchParams.get('tokens') === 'true'
+        });
+      } else if (format === 'pairs') {
+        const enriched = await getEnrichedConversation(projectPath, executionId);
+        result = enriched?.merged || null;
+      } else {
+        result = await getNativeSessionContent(projectPath, executionId);
+      }
+
+      if (!result) {
+        res.writeHead(404, { 'Content-Type': 'application/json' });
+        res.end(JSON.stringify({ error: 'Native session not found' }));
+        return true;
+      }
+
+      res.writeHead(200, { 'Content-Type': format === 'text' ? 'text/plain' : 'application/json' });
+      res.end(format === 'text' ? result : JSON.stringify(result));
+    } catch (err) {
+      res.writeHead(500, { 'Content-Type': 'application/json' });
+      res.end(JSON.stringify({ error: (err as Error).message }));
+    }
+    return true;
+  }
+
+  // API: Get Enriched Conversation
+  if (pathname === '/api/cli/enriched') {
+    const projectPath = url.searchParams.get('path') || initialPath;
+    const executionId = url.searchParams.get('id');
+
+    if (!executionId) {
+      res.writeHead(400, { 'Content-Type': 'application/json' });
+      res.end(JSON.stringify({ error: 'Execution ID is required' }));
+      return true;
+    }
+
+    getEnrichedConversation(projectPath, executionId)
+      .then(result => {
+        if (!result) {
+          res.writeHead(404, { 'Content-Type': 'application/json' });
+          res.end(JSON.stringify({ error: 'Conversation not found' }));
+          return;
+        }
+        res.writeHead(200, { 'Content-Type': 'application/json' });
+        res.end(JSON.stringify(result));
+      })
+      .catch(err => {
+        res.writeHead(500, { 'Content-Type': 'application/json' });
+        res.end(JSON.stringify({ error: (err as Error).message }));
+      });
+    return true;
+  }
+
+  // API: Get History with Native Session Info
+  if (pathname === '/api/cli/history-native') {
+    const projectPath = url.searchParams.get('path') || initialPath;
+    const limit = parseInt(url.searchParams.get('limit') || '50', 10);
+    const tool = url.searchParams.get('tool') || null;
+    const status = url.searchParams.get('status') || null;
+    const category = url.searchParams.get('category') as 'user' | 'internal' | 'insight' | null;
+    const search = url.searchParams.get('search') || null;
+
+    getHistoryWithNativeInfo(projectPath, { limit, tool, status, category, search })
+      .then(history => {
+        res.writeHead(200, { 'Content-Type': 'application/json' });
+        res.end(JSON.stringify(history));
+      })
+      .catch(err => {
+        res.writeHead(500, { 'Content-Type': 'application/json' });
+        res.end(JSON.stringify({ error: (err as Error).message }));
+      });
+    return true;
+  }
+
+  // API: Execute CLI Tool
+  if (pathname === '/api/cli/execute' && req.method === 'POST') {
+    handlePostRequest(req, res, async (body) => {
+      const { tool, prompt, mode, format, model, dir, includeDirs, timeout, smartContext, parentExecutionId, category } = body as any;
+
+      if (!tool || !prompt) {
+        return { error: 'tool and prompt are required', status: 400 };
+      }
+
+      // Generate smart context if enabled
+      let finalPrompt = prompt;
+      if (smartContext?.enabled) {
+        try {
+          const contextResult = await generateSmartContext(prompt, {
+            enabled: true,
+            maxFiles: smartContext.maxFiles || 10,
+            searchMode: 'text'
+          }, dir || initialPath);
+
+          const contextAppendage = formatSmartContext(contextResult);
+          if (contextAppendage) {
+            finalPrompt = prompt + contextAppendage;
+          }
+        } catch (err) {
+          console.warn('[Smart Context] Failed to generate:', err);
+        }
+      }
+
+      const executionId = `${Date.now()}-${tool}`;
+
+      // Broadcast execution started
+      broadcastToClients({
+        type: 'CLI_EXECUTION_STARTED',
+        payload: {
+          executionId,
+          tool,
+          mode: mode || 'analysis',
+          parentExecutionId,
+          timestamp: new Date().toISOString()
+        }
+      });
+
+      try {
+        const result = await executeCliTool({
+          tool,
+          prompt: finalPrompt,
+          mode: mode || 'analysis',
+          format: format || 'plain',
+          model,
+          cd: dir || initialPath,
+          includeDirs,
+          timeout: timeout || 300000,
+          category: category || 'user',
+          parentExecutionId,
+          stream: true
+        }, (chunk) => {
+          broadcastToClients({
+            type: 'CLI_OUTPUT',
+            payload: {
+              executionId,
+              chunkType: chunk.type,
+              data: chunk.data
+            }
+          });
+        });
+
+        // Broadcast completion
+        broadcastToClients({
+          type: 'CLI_EXECUTION_COMPLETED',
+          payload: {
+            executionId,
+            success: result.success,
+            status: result.execution.status,
+            duration_ms: result.execution.duration_ms
+          }
+        });
+
+        return {
+          success: result.success,
+          execution: result.execution
+        };
+
+      } catch (error: unknown) {
+        broadcastToClients({
+          type: 'CLI_EXECUTION_ERROR',
+          payload: {
+            executionId,
+            error: (error as Error).message
+          }
+        });
+
+        return { error: (error as Error).message, status: 500 };
+      }
+    });
+    return true;
+  }
+
+  // API: CLI Review - Submit review for an execution
+  if (pathname.startsWith('/api/cli/review/') && req.method === 'POST') {
+    const executionId = pathname.replace('/api/cli/review/', '');
+    handlePostRequest(req, res, async (body) => {
+      const { status, rating, comments, reviewer } = body as {
+        status: 'pending' | 'approved' | 'rejected' | 'changes_requested';
+        rating?: number;
+        comments?: string;
+        reviewer?: string;
+      };
+
+      if (!status) {
+        return { error: 'status is required', status: 400 };
+      }
+
+      try {
+        const historyStore = await import('../../tools/cli-history-store.js').then(m => m.getHistoryStore(initialPath));
+
+        const execution = historyStore.getConversation(executionId);
+        if (!execution) {
+          return { error: 'Execution not found', status: 404 };
+        }
+
+        const review = historyStore.saveReview({
+          execution_id: executionId,
+          status,
+          rating,
+          comments,
+          reviewer
+        });
+
+        broadcastToClients({
+          type: 'CLI_REVIEW_UPDATED',
+          payload: {
+            executionId,
+            review,
+            timestamp: new Date().toISOString()
+          }
+        });
+
+        return { success: true, review };
+      } catch (error: unknown) {
+        return { error: (error as Error).message, status: 500 };
+      }
+    });
+    return true;
+  }
+
+  // API: CLI Review - Get review for an execution
+  if (pathname.startsWith('/api/cli/review/') && req.method === 'GET') {
+    const executionId = pathname.replace('/api/cli/review/', '');
+    try {
+      const historyStore = await import('../../tools/cli-history-store.js').then(m => m.getHistoryStore(initialPath));
+      const review = historyStore.getReview(executionId);
+
+      res.writeHead(200, { 'Content-Type': 'application/json' });
+      res.end(JSON.stringify({ review }));
+    } catch (error: unknown) {
+      res.writeHead(500, { 'Content-Type': 'application/json' });
+      res.end(JSON.stringify({ error: (error as Error).message }));
+    }
+    return true;
+  }
+
+  // API: CLI Reviews - List all reviews
+  if (pathname === '/api/cli/reviews' && req.method === 'GET') {
+    try {
+      const historyStore = await import('../../tools/cli-history-store.js').then(m => m.getHistoryStore(initialPath));
+      const statusFilter = url.searchParams.get('status') as 'pending' | 'approved' | 'rejected' | 'changes_requested' | null;
+      const limit = parseInt(url.searchParams.get('limit') || '50', 10);
+
+      const reviews = historyStore.getReviews({
+        status: statusFilter || undefined,
+        limit
+      });
+
+      res.writeHead(200, { 'Content-Type': 'application/json' });
+      res.end(JSON.stringify({ reviews, count: reviews.length }));
+    } catch (error: unknown) {
+      res.writeHead(500, { 'Content-Type': 'application/json' });
+      res.end(JSON.stringify({ error: (error as Error).message }));
+    }
+    return true;
+  }
+
+  return false;
+}

ccw/src/core/routes/codexlens-routes.ts

@@ -0,0 +1,175 @@
+// @ts-nocheck
+/**
+ * CodexLens Routes Module
+ * Handles all CodexLens-related API endpoints
+ */
+import type { IncomingMessage, ServerResponse } from 'http';
+import {
+  checkVenvStatus,
+  bootstrapVenv,
+  executeCodexLens,
+  checkSemanticStatus,
+  installSemantic
+} from '../../tools/codex-lens.js';
+
+export interface RouteContext {
+  pathname: string;
+  url: URL;
+  req: IncomingMessage;
+  res: ServerResponse;
+  initialPath: string;
+  handlePostRequest: (req: IncomingMessage, res: ServerResponse, handler: (body: unknown) => Promise<any>) => void;
+  broadcastToClients: (data: unknown) => void;
+}
+
+/**
+ * Handle CodexLens routes
+ * @returns true if route was handled, false otherwise
+ */
+export async function handleCodexLensRoutes(ctx: RouteContext): Promise<boolean> {
+  const { pathname, url, req, res, initialPath, handlePostRequest, broadcastToClients } = ctx;
+
+  // API: CodexLens Status
+  if (pathname === '/api/codexlens/status') {
+    const status = await checkVenvStatus();
+    res.writeHead(200, { 'Content-Type': 'application/json' });
+    res.end(JSON.stringify(status));
+    return true;
+  }
+
+  // API: CodexLens Bootstrap (Install)
+  if (pathname === '/api/codexlens/bootstrap' && req.method === 'POST') {
+    handlePostRequest(req, res, async () => {
+      try {
+        const result = await bootstrapVenv();
+        if (result.success) {
+          const status = await checkVenvStatus();
+          return { success: true, message: 'CodexLens installed successfully', version: status.version };
+        } else {
+          return { success: false, error: result.error, status: 500 };
+        }
+      } catch (err) {
+        return { success: false, error: err.message, status: 500 };
+      }
+    });
+    return true;
+  }
+
+  // API: CodexLens Init (Initialize workspace index)
+  if (pathname === '/api/codexlens/init' && req.method === 'POST') {
+    handlePostRequest(req, res, async (body) => {
+      const { path: projectPath } = body;
+      const targetPath = projectPath || initialPath;
+
+      try {
+        const result = await executeCodexLens(['init', targetPath, '--json'], { cwd: targetPath });
+        if (result.success) {
+          try {
+            const parsed = JSON.parse(result.output);
+            return { success: true, result: parsed };
+          } catch {
+            return { success: true, output: result.output };
+          }
+        } else {
+          return { success: false, error: result.error, status: 500 };
+        }
+      } catch (err) {
+        return { success: false, error: err.message, status: 500 };
+      }
+    });
+    return true;
+  }
+
+  // API: CodexLens Semantic Search Status
+  if (pathname === '/api/codexlens/semantic/status') {
+    const status = await checkSemanticStatus();
+    res.writeHead(200, { 'Content-Type': 'application/json' });
+    res.end(JSON.stringify(status));
+    return true;
+  }
+
+  // API: CodexLens Semantic Metadata List
+  if (pathname === '/api/codexlens/semantic/metadata') {
+    const offset = parseInt(url.searchParams.get('offset') || '0', 10);
+    const limit = parseInt(url.searchParams.get('limit') || '50', 10);
+    const tool = url.searchParams.get('tool') || '';
+    const projectPath = url.searchParams.get('path') || initialPath;
+
+    try {
+      const args = [
+        'semantic-list',
+        '--path', projectPath,
+        '--offset', offset.toString(),
+        '--limit', limit.toString(),
+        '--json'
+      ];
+      if (tool) {
+        args.push('--tool', tool);
+      }
+
+      const result = await executeCodexLens(args, { cwd: projectPath });
+
+      if (result.success) {
+        res.writeHead(200, { 'Content-Type': 'application/json' });
+        res.end(result.output);
+      } else {
+        res.writeHead(500, { 'Content-Type': 'application/json' });
+        res.end(JSON.stringify({ success: false, error: result.error }));
+      }
+    } catch (err) {
+      res.writeHead(500, { 'Content-Type': 'application/json' });
+      res.end(JSON.stringify({ success: false, error: err.message }));
+    }
+    return true;
+  }
+
+  // API: CodexLens LLM Enhancement (run enhance command)
+  if (pathname === '/api/codexlens/enhance' && req.method === 'POST') {
+    handlePostRequest(req, res, async (body) => {
+      const { path: projectPath, tool = 'gemini', batchSize = 5, timeoutMs = 300000 } = body;
+      const targetPath = projectPath || initialPath;
+
+      try {
+        const args = ['enhance', targetPath, '--tool', tool, '--batch-size', batchSize.toString()];
+        const result = await executeCodexLens(args, { cwd: targetPath, timeout: timeoutMs + 30000 });
+        if (result.success) {
+          try {
+            const parsed = JSON.parse(result.output);
+            return { success: true, result: parsed };
+          } catch {
+            return { success: true, output: result.output };
+          }
+        } else {
+          return { success: false, error: result.error, status: 500 };
+        }
+      } catch (err) {
+        return { success: false, error: err.message, status: 500 };
+      }
+    });
+    return true;
+  }
+
+  // API: CodexLens Semantic Search Install (fastembed, ONNX-based, ~200MB)
+  if (pathname === '/api/codexlens/semantic/install' && req.method === 'POST') {
+    handlePostRequest(req, res, async () => {
+      try {
+        const result = await installSemantic();
+        if (result.success) {
+          const status = await checkSemanticStatus();
+          return {
+            success: true,
+            message: 'Semantic search installed successfully (fastembed)',
+            ...status
+          };
+        } else {
+          return { success: false, error: result.error, status: 500 };
+        }
+      } catch (err) {
+        return { success: false, error: err.message, status: 500 };
+      }
+    });
+    return true;
+  }
+
+  return false;
+}

ccw/src/core/routes/files-routes.ts

@@ -0,0 +1,428 @@
+// @ts-nocheck
+/**
+ * Files Routes Module
+ * Handles all file browsing related API endpoints
+ */
+import type { IncomingMessage, ServerResponse } from 'http';
+import { existsSync, readFileSync, readdirSync, statSync } from 'fs';
+import { join } from 'path';
+
+export interface RouteContext {
+  pathname: string;
+  url: URL;
+  req: IncomingMessage;
+  res: ServerResponse;
+  initialPath: string;
+  handlePostRequest: (req: IncomingMessage, res: ServerResponse, handler: (body: unknown) => Promise<any>) => void;
+  broadcastToClients: (data: unknown) => void;
+}
+
+// ========================================
+// Constants
+// ========================================
+
+// Directories to always exclude from file tree
+const EXPLORER_EXCLUDE_DIRS = [
+  '.git', '__pycache__', 'node_modules', '.venv', 'venv', 'env',
+  'dist', 'build', '.cache', '.pytest_cache', '.mypy_cache',
+  'coverage', '.nyc_output', 'logs', 'tmp', 'temp', '.next',
+  '.nuxt', '.output', '.turbo', '.parcel-cache'
+];
+
+// File extensions to language mapping for syntax highlighting
+const EXT_TO_LANGUAGE = {
+  '.js': 'javascript',
+  '.jsx': 'javascript',
+  '.ts': 'typescript',
+  '.tsx': 'typescript',
+  '.py': 'python',
+  '.rb': 'ruby',
+  '.java': 'java',
+  '.go': 'go',
+  '.rs': 'rust',
+  '.c': 'c',
+  '.cpp': 'cpp',
+  '.h': 'c',
+  '.hpp': 'cpp',
+  '.cs': 'csharp',
+  '.php': 'php',
+  '.swift': 'swift',
+  '.kt': 'kotlin',
+  '.scala': 'scala',
+  '.sh': 'bash',
+  '.bash': 'bash',
+  '.zsh': 'bash',
+  '.ps1': 'powershell',
+  '.sql': 'sql',
+  '.html': 'html',
+  '.htm': 'html',
+  '.css': 'css',
+  '.scss': 'scss',
+  '.sass': 'sass',
+  '.less': 'less',
+  '.json': 'json',
+  '.xml': 'xml',
+  '.yaml': 'yaml',
+  '.yml': 'yaml',
+  '.toml': 'toml',
+  '.ini': 'ini',
+  '.cfg': 'ini',
+  '.conf': 'nginx',
+  '.md': 'markdown',
+  '.markdown': 'markdown',
+  '.txt': 'plaintext',
+  '.log': 'plaintext',
+  '.env': 'bash',
+  '.dockerfile': 'dockerfile',
+  '.vue': 'html',
+  '.svelte': 'html'
+};
+
+// ========================================
+// Helper Functions
+// ========================================
+
+/**
+ * Parse .gitignore file and return patterns
+ * @param {string} gitignorePath - Path to .gitignore file
+ * @returns {string[]} Array of gitignore patterns
+ */
+function parseGitignore(gitignorePath) {
+  try {
+    if (!existsSync(gitignorePath)) return [];
+    const content = readFileSync(gitignorePath, 'utf8');
+    return content
+      .split('\n')
+      .map(line => line.trim())
+      .filter(line => line && !line.startsWith('#'));
+  } catch {
+    return [];
+  }
+}
+
+/**
+ * Check if a file/directory should be ignored based on gitignore patterns
+ * Simple pattern matching (supports basic glob patterns)
+ * @param {string} name - File or directory name
+ * @param {string[]} patterns - Gitignore patterns
+ * @param {boolean} isDirectory - Whether the entry is a directory
+ * @returns {boolean}
+ */
+function shouldIgnore(name, patterns, isDirectory) {
+  // Always exclude certain directories
+  if (isDirectory && EXPLORER_EXCLUDE_DIRS.includes(name)) {
+    return true;
+  }
+
+  // Skip hidden files/directories (starting with .)
+  if (name.startsWith('.') && name !== '.claude' && name !== '.workflow') {
+    return true;
+  }
+
+  for (const pattern of patterns) {
+    let p = pattern;
+
+    // Handle negation patterns (we skip them for simplicity)
+    if (p.startsWith('!')) continue;
+
+    // Handle directory-only patterns
+    if (p.endsWith('/')) {
+      if (!isDirectory) continue;
+      p = p.slice(0, -1);
+    }
+
+    // Simple pattern matching
+    if (p === name) return true;
+
+    // Handle wildcard patterns
+    if (p.includes('*')) {
+      const regex = new RegExp('^' + p.replace(/\./g, '\\.').replace(/\*/g, '.*') + '$');
+      if (regex.test(name)) return true;
+    }
+
+    // Handle extension patterns like *.log
+    if (p.startsWith('*.')) {
+      const ext = p.slice(1);
+      if (name.endsWith(ext)) return true;
+    }
+  }
+
+  return false;
+}
+
+/**
+ * List directory files with .gitignore filtering
+ * @param {string} dirPath - Directory path to list
+ * @returns {Promise<Object>}
+ */
+async function listDirectoryFiles(dirPath) {
+  try {
+    // Normalize path
+    let normalizedPath = dirPath.replace(/\\/g, '/');
+    if (normalizedPath.match(/^\/[a-zA-Z]\//)) {
+      normalizedPath = normalizedPath.charAt(1).toUpperCase() + ':' + normalizedPath.slice(2);
+    }
+
+    if (!existsSync(normalizedPath)) {
+      return { error: 'Directory not found', files: [] };
+    }
+
+    if (!statSync(normalizedPath).isDirectory()) {
+      return { error: 'Not a directory', files: [] };
+    }
+
+    // Parse .gitignore patterns
+    const gitignorePath = join(normalizedPath, '.gitignore');
+    const gitignorePatterns = parseGitignore(gitignorePath);
+
+    // Read directory entries
+    const entries = readdirSync(normalizedPath, { withFileTypes: true });
+
+    const files = [];
+    for (const entry of entries) {
+      const isDirectory = entry.isDirectory();
+
+      // Check if should be ignored
+      if (shouldIgnore(entry.name, gitignorePatterns, isDirectory)) {
+        continue;
+      }
+
+      const entryPath = join(normalizedPath, entry.name);
+      const fileInfo = {
+        name: entry.name,
+        type: isDirectory ? 'directory' : 'file',
+        path: entryPath.replace(/\\/g, '/')
+      };
+
+      // Check if directory has CLAUDE.md
+      if (isDirectory) {
+        const claudeMdPath = join(entryPath, 'CLAUDE.md');
+        fileInfo.hasClaudeMd = existsSync(claudeMdPath);
+      }
+
+      files.push(fileInfo);
+    }
+
+    // Sort: directories first, then alphabetically
+    files.sort((a, b) => {
+      if (a.type === 'directory' && b.type !== 'directory') return -1;
+      if (a.type !== 'directory' && b.type === 'directory') return 1;
+      return a.name.localeCompare(b.name);
+    });
+
+    return {
+      path: normalizedPath.replace(/\\/g, '/'),
+      files,
+      gitignorePatterns
+    };
+  } catch (error: unknown) {
+    console.error('Error listing directory:', error);
+    return { error: (error as Error).message, files: [] };
+  }
+}
+
+/**
+ * Get file content for preview
+ * @param {string} filePath - Path to file
+ * @returns {Promise<Object>}
+ */
+async function getFileContent(filePath) {
+  try {
+    // Normalize path
+    let normalizedPath = filePath.replace(/\\/g, '/');
+    if (normalizedPath.match(/^\/[a-zA-Z]\//)) {
+      normalizedPath = normalizedPath.charAt(1).toUpperCase() + ':' + normalizedPath.slice(2);
+    }
+
+    if (!existsSync(normalizedPath)) {
+      return { error: 'File not found' };
+    }
+
+    const stats = statSync(normalizedPath);
+    if (stats.isDirectory()) {
+      return { error: 'Cannot read directory' };
+    }
+
+    // Check file size (limit to 1MB for preview)
+    if (stats.size > 1024 * 1024) {
+      return { error: 'File too large for preview (max 1MB)', size: stats.size };
+    }
+
+    // Read file content
+    const content = readFileSync(normalizedPath, 'utf8');
+    const ext = normalizedPath.substring(normalizedPath.lastIndexOf('.')).toLowerCase();
+    const language = EXT_TO_LANGUAGE[ext] || 'plaintext';
+    const isMarkdown = ext === '.md' || ext === '.markdown';
+    const fileName = normalizedPath.split('/').pop();
+
+    return {
+      content,
+      language,
+      isMarkdown,
+      fileName,
+      path: normalizedPath,
+      size: stats.size,
+      lines: content.split('\n').length
+    };
+  } catch (error: unknown) {
+    console.error('Error reading file:', error);
+    return { error: (error as Error).message };
+  }
+}
+
+/**
+ * Trigger update-module-claude tool (async execution)
+ * @param {string} targetPath - Directory path to update
+ * @param {string} tool - CLI tool to use (gemini, qwen, codex, claude)
+ * @param {string} strategy - Update strategy (single-layer, multi-layer)
+ * @returns {Promise<Object>}
+ */
+async function triggerUpdateClaudeMd(targetPath, tool, strategy) {
+  const { spawn } = await import('child_process');
+
+  // Normalize path
+  let normalizedPath = targetPath.replace(/\\/g, '/');
+  if (normalizedPath.match(/^\/[a-zA-Z]\//)) {
+    normalizedPath = normalizedPath.charAt(1).toUpperCase() + ':' + normalizedPath.slice(2);
+  }
+
+  if (!existsSync(normalizedPath)) {
+    return { error: 'Directory not found' };
+  }
+
+  if (!statSync(normalizedPath).isDirectory()) {
+    return { error: 'Not a directory' };
+  }
+
+  // Build ccw tool command with JSON parameters
+  const params = JSON.stringify({
+    strategy,
+    path: normalizedPath,
+    tool
+  });
+
+  console.log(`[Explorer] Running async: ccw tool exec update_module_claude with ${tool} (${strategy})`);
+
+  return new Promise((resolve) => {
+    const isWindows = process.platform === 'win32';
+
+    // Spawn the process
+    const child = spawn('ccw', ['tool', 'exec', 'update_module_claude', params], {
+      cwd: normalizedPath,
+      shell: isWindows,
+      stdio: ['ignore', 'pipe', 'pipe']
+    });
+
+    let stdout = '';
+    let stderr = '';
+
+    child.stdout.on('data', (data) => {
+      stdout += data.toString();
+    });
+
+    child.stderr.on('data', (data) => {
+      stderr += data.toString();
+    });
+
+    child.on('close', (code) => {
+      if (code === 0) {
+        // Parse the JSON output from the tool
+        let result;
+        try {
+          result = JSON.parse(stdout);
+        } catch {
+          result = { output: stdout };
+        }
+
+        if (result.success === false || result.error) {
+          resolve({
+            success: false,
+            error: result.error || result.message || 'Update failed',
+            output: stdout
+          });
+        } else {
+          resolve({
+            success: true,
+            message: result.message || `CLAUDE.md updated successfully using ${tool} (${strategy})`,
+            output: stdout,
+            path: normalizedPath
+          });
+        }
+      } else {
+        resolve({
+          success: false,
+          error: stderr || `Process exited with code ${code}`,
+          output: stdout + stderr
+        });
+      }
+    });
+
+    child.on('error', (error) => {
+      console.error('Error spawning process:', error);
+      resolve({
+        success: false,
+        error: (error as Error).message,
+        output: ''
+      });
+    });
+
+    // Timeout after 5 minutes
+    setTimeout(() => {
+      child.kill();
+      resolve({
+        success: false,
+        error: 'Timeout: Process took longer than 5 minutes',
+        output: stdout
+      });
+    }, 300000);
+  });
+}
+
+// ========================================
+// Route Handler
+// ========================================
+
+/**
+ * Handle files routes
+ * @returns true if route was handled, false otherwise
+ */
+export async function handleFilesRoutes(ctx: RouteContext): Promise<boolean> {
+  const { pathname, url, req, res, initialPath, handlePostRequest } = ctx;
+
+  // API: List directory files with .gitignore filtering (Explorer view)
+  if (pathname === '/api/files') {
+    const dirPath = url.searchParams.get('path') || initialPath;
+    const filesData = await listDirectoryFiles(dirPath);
+    res.writeHead(200, { 'Content-Type': 'application/json' });
+    res.end(JSON.stringify(filesData));
+    return true;
+  }
+
+  // API: Get file content for preview (Explorer view)
+  if (pathname === '/api/file-content') {
+    const filePath = url.searchParams.get('path');
+    if (!filePath) {
+      res.writeHead(400, { 'Content-Type': 'application/json' });
+      res.end(JSON.stringify({ error: 'File path is required' }));
+      return true;
+    }
+    const fileData = await getFileContent(filePath);
+    res.writeHead(fileData.error ? 404 : 200, { 'Content-Type': 'application/json' });
+    res.end(JSON.stringify(fileData));
+    return true;
+  }
+
+  // API: Update CLAUDE.md using CLI tools (Explorer view)
+  if (pathname === '/api/update-claude-md' && req.method === 'POST') {
+    handlePostRequest(req, res, async (body) => {
+      const { path: targetPath, tool = 'gemini', strategy = 'single-layer' } = body;
+      if (!targetPath) {
+        return { error: 'path is required', status: 400 };
+      }
+      return await triggerUpdateClaudeMd(targetPath, tool, strategy);
+    });
+    return true;
+  }
+
+  return false;
+}

ccw/src/core/routes/rules-routes.ts

@@ -0,0 +1,266 @@
+// @ts-nocheck
+/**
+ * Rules Routes Module
+ * Handles all Rules-related API endpoints
+ */
+import type { IncomingMessage, ServerResponse } from 'http';
+import { readFileSync, existsSync, readdirSync, unlinkSync } from 'fs';
+import { join } from 'path';
+import { homedir } from 'os';
+
+export interface RouteContext {
+  pathname: string;
+  url: URL;
+  req: IncomingMessage;
+  res: ServerResponse;
+  initialPath: string;
+  handlePostRequest: (req: IncomingMessage, res: ServerResponse, handler: (body: unknown) => Promise<any>) => void;
+  broadcastToClients: (data: unknown) => void;
+}
+
+/**
+ * Parse rule frontmatter
+ * @param {string} content
+ * @returns {Object}
+ */
+function parseRuleFrontmatter(content) {
+  const result = {
+    paths: [],
+    content: content
+  };
+
+  // Check for YAML frontmatter
+  if (content.startsWith('---')) {
+    const endIndex = content.indexOf('---', 3);
+    if (endIndex > 0) {
+      const frontmatter = content.substring(3, endIndex).trim();
+      result.content = content.substring(endIndex + 3).trim();
+
+      // Parse frontmatter lines
+      const lines = frontmatter.split('\n');
+      for (const line of lines) {
+        const colonIndex = line.indexOf(':');
+        if (colonIndex > 0) {
+          const key = line.substring(0, colonIndex).trim().toLowerCase();
+          const value = line.substring(colonIndex + 1).trim();
+
+          if (key === 'paths') {
+            // Parse as comma-separated or YAML array
+            result.paths = value.replace(/^\[|\]$/g, '').split(',').map(t => t.trim()).filter(Boolean);
+          }
+        }
+      }
+    }
+  }
+
+  return result;
+}
+
+/**
+ * Recursively scan rules directory for .md files
+ * @param {string} dirPath
+ * @param {string} location
+ * @param {string} subdirectory
+ * @returns {Object[]}
+ */
+function scanRulesDirectory(dirPath, location, subdirectory) {
+  const rules = [];
+
+  try {
+    const entries = readdirSync(dirPath, { withFileTypes: true });
+    for (const entry of entries) {
+      const fullPath = join(dirPath, entry.name);
+
+      if (entry.isFile() && entry.name.endsWith('.md')) {
+        const content = readFileSync(fullPath, 'utf8');
+        const parsed = parseRuleFrontmatter(content);
+
+        rules.push({
+          name: entry.name,
+          paths: parsed.paths,
+          content: parsed.content,
+          location,
+          path: fullPath,
+          subdirectory: subdirectory || null
+        });
+      } else if (entry.isDirectory()) {
+        // Recursively scan subdirectories
+        const subRules = scanRulesDirectory(fullPath, location, subdirectory ? `${subdirectory}/${entry.name}` : entry.name);
+        rules.push(...subRules);
+      }
+    }
+  } catch (e) {
+    // Ignore errors
+  }
+
+  return rules;
+}
+
+/**
+ * Get rules configuration from project and user directories
+ * @param {string} projectPath
+ * @returns {Object}
+ */
+function getRulesConfig(projectPath) {
+  const result = {
+    projectRules: [],
+    userRules: []
+  };
+
+  try {
+    // Project rules: .claude/rules/
+    const projectRulesDir = join(projectPath, '.claude', 'rules');
+    if (existsSync(projectRulesDir)) {
+      const rules = scanRulesDirectory(projectRulesDir, 'project', '');
+      result.projectRules = rules;
+    }
+
+    // User rules: ~/.claude/rules/
+    const userRulesDir = join(homedir(), '.claude', 'rules');
+    if (existsSync(userRulesDir)) {
+      const rules = scanRulesDirectory(userRulesDir, 'user', '');
+      result.userRules = rules;
+    }
+  } catch (error) {
+    console.error('Error reading rules config:', error);
+  }
+
+  return result;
+}
+
+/**
+ * Find rule file in directory (including subdirectories)
+ * @param {string} baseDir
+ * @param {string} ruleName
+ * @returns {string|null}
+ */
+function findRuleFile(baseDir, ruleName) {
+  try {
+    // Direct path
+    const directPath = join(baseDir, ruleName);
+    if (existsSync(directPath)) {
+      return directPath;
+    }
+
+    // Search in subdirectories
+    const entries = readdirSync(baseDir, { withFileTypes: true });
+    for (const entry of entries) {
+      if (entry.isDirectory()) {
+        const subPath = findRuleFile(join(baseDir, entry.name), ruleName);
+        if (subPath) return subPath;
+      }
+    }
+  } catch (e) {
+    // Ignore errors
+  }
+  return null;
+}
+
+/**
+ * Get single rule detail
+ * @param {string} ruleName
+ * @param {string} location - 'project' or 'user'
+ * @param {string} projectPath
+ * @returns {Object}
+ */
+function getRuleDetail(ruleName, location, projectPath) {
+  try {
+    const baseDir = location === 'project'
+      ? join(projectPath, '.claude', 'rules')
+      : join(homedir(), '.claude', 'rules');
+
+    // Find the rule file (could be in subdirectory)
+    const rulePath = findRuleFile(baseDir, ruleName);
+
+    if (!rulePath) {
+      return { error: 'Rule not found' };
+    }
+
+    const content = readFileSync(rulePath, 'utf8');
+    const parsed = parseRuleFrontmatter(content);
+
+    return {
+      rule: {
+        name: ruleName,
+        paths: parsed.paths,
+        content: parsed.content,
+        location,
+        path: rulePath
+      }
+    };
+  } catch (error) {
+    return { error: (error as Error).message };
+  }
+}
+
+/**
+ * Delete a rule
+ * @param {string} ruleName
+ * @param {string} location
+ * @param {string} projectPath
+ * @returns {Object}
+ */
+function deleteRule(ruleName, location, projectPath) {
+  try {
+    const baseDir = location === 'project'
+      ? join(projectPath, '.claude', 'rules')
+      : join(homedir(), '.claude', 'rules');
+
+    const rulePath = findRuleFile(baseDir, ruleName);
+
+    if (!rulePath) {
+      return { error: 'Rule not found' };
+    }
+
+    unlinkSync(rulePath);
+
+    return { success: true, ruleName, location };
+  } catch (error) {
+    return { error: (error as Error).message };
+  }
+}
+
+/**
+ * Handle Rules routes
+ * @returns true if route was handled, false otherwise
+ */
+export async function handleRulesRoutes(ctx: RouteContext): Promise<boolean> {
+  const { pathname, url, req, res, initialPath, handlePostRequest } = ctx;
+
+  // API: Get all rules
+  if (pathname === '/api/rules') {
+    const projectPathParam = url.searchParams.get('path') || initialPath;
+    const rulesData = getRulesConfig(projectPathParam);
+    res.writeHead(200, { 'Content-Type': 'application/json' });
+    res.end(JSON.stringify(rulesData));
+    return true;
+  }
+
+  // API: Get single rule detail
+  if (pathname.startsWith('/api/rules/') && req.method === 'GET' && !pathname.endsWith('/rules/')) {
+    const ruleName = decodeURIComponent(pathname.replace('/api/rules/', ''));
+    const location = url.searchParams.get('location') || 'project';
+    const projectPathParam = url.searchParams.get('path') || initialPath;
+    const ruleDetail = getRuleDetail(ruleName, location, projectPathParam);
+    if (ruleDetail.error) {
+      res.writeHead(404, { 'Content-Type': 'application/json' });
+      res.end(JSON.stringify(ruleDetail));
+    } else {
+      res.writeHead(200, { 'Content-Type': 'application/json' });
+      res.end(JSON.stringify(ruleDetail));
+    }
+    return true;
+  }
+
+  // API: Delete rule
+  if (pathname.startsWith('/api/rules/') && req.method === 'DELETE') {
+    const ruleName = decodeURIComponent(pathname.replace('/api/rules/', ''));
+    handlePostRequest(req, res, async (body) => {
+      const { location, projectPath: projectPathParam } = body;
+      return deleteRule(ruleName, location, projectPathParam || initialPath);
+    });
+    return true;
+  }
+
+  return false;
+}

ccw/src/core/routes/session-routes.ts

@@ -0,0 +1,406 @@
+// @ts-nocheck
+/**
+ * Session Routes Module
+ * Handles all Session/Task-related API endpoints
+ */
+import type { IncomingMessage, ServerResponse } from 'http';
+import { readFileSync, writeFileSync, existsSync, readdirSync } from 'fs';
+import { join } from 'path';
+
+export interface RouteContext {
+  pathname: string;
+  url: URL;
+  req: IncomingMessage;
+  res: ServerResponse;
+  initialPath: string;
+  handlePostRequest: (req: IncomingMessage, res: ServerResponse, handler: (body: unknown) => Promise<any>) => void;
+  broadcastToClients: (data: unknown) => void;
+}
+
+/**
+ * Get session detail data (context, summaries, impl-plan, review)
+ * @param {string} sessionPath - Path to session directory
+ * @param {string} dataType - Type of data to load ('all', 'context', 'tasks', 'summary', 'plan', 'explorations', 'conflict', 'impl-plan', 'review')
+ * @returns {Promise<Object>}
+ */
+async function getSessionDetailData(sessionPath, dataType) {
+  const result = {};
+
+  // Normalize path
+  const normalizedPath = sessionPath.replace(/\\/g, '/');
+
+  try {
+    // Load context-package.json (in .process/ subfolder)
+    if (dataType === 'context' || dataType === 'all') {
+      // Try .process/context-package.json first (common location)
+      let contextFile = join(normalizedPath, '.process', 'context-package.json');
+      if (!existsSync(contextFile)) {
+        // Fallback to session root
+        contextFile = join(normalizedPath, 'context-package.json');
+      }
+      if (existsSync(contextFile)) {
+        try {
+          result.context = JSON.parse(readFileSync(contextFile, 'utf8'));
+        } catch (e) {
+          result.context = null;
+        }
+      }
+    }
+
+    // Load task JSONs from .task/ folder
+    if (dataType === 'tasks' || dataType === 'all') {
+      const taskDir = join(normalizedPath, '.task');
+      result.tasks = [];
+      if (existsSync(taskDir)) {
+        const files = readdirSync(taskDir).filter(f => f.endsWith('.json') && f.startsWith('IMPL-'));
+        for (const file of files) {
+          try {
+            const content = JSON.parse(readFileSync(join(taskDir, file), 'utf8'));
+            result.tasks.push({
+              filename: file,
+              task_id: file.replace('.json', ''),
+              ...content
+            });
+          } catch (e) {
+            // Skip unreadable files
+          }
+        }
+        // Sort by task ID
+        result.tasks.sort((a, b) => a.task_id.localeCompare(b.task_id));
+      }
+    }
+
+    // Load summaries from .summaries/
+    if (dataType === 'summary' || dataType === 'all') {
+      const summariesDir = join(normalizedPath, '.summaries');
+      result.summaries = [];
+      if (existsSync(summariesDir)) {
+        const files = readdirSync(summariesDir).filter(f => f.endsWith('.md'));
+        for (const file of files) {
+          try {
+            const content = readFileSync(join(summariesDir, file), 'utf8');
+            result.summaries.push({ name: file.replace('.md', ''), content });
+          } catch (e) {
+            // Skip unreadable files
+          }
+        }
+      }
+    }
+
+    // Load plan.json (for lite tasks)
+    if (dataType === 'plan' || dataType === 'all') {
+      const planFile = join(normalizedPath, 'plan.json');
+      if (existsSync(planFile)) {
+        try {
+          result.plan = JSON.parse(readFileSync(planFile, 'utf8'));
+        } catch (e) {
+          result.plan = null;
+        }
+      }
+    }
+
+    // Load explorations (exploration-*.json files) - check .process/ first, then session root
+    if (dataType === 'context' || dataType === 'explorations' || dataType === 'all') {
+      result.explorations = { manifest: null, data: {} };
+
+      // Try .process/ first (standard workflow sessions), then session root (lite tasks)
+      const searchDirs = [
+        join(normalizedPath, '.process'),
+        normalizedPath
+      ];
+
+      for (const searchDir of searchDirs) {
+        if (!existsSync(searchDir)) continue;
+
+        // Look for explorations-manifest.json
+        const manifestFile = join(searchDir, 'explorations-manifest.json');
+        if (existsSync(manifestFile)) {
+          try {
+            result.explorations.manifest = JSON.parse(readFileSync(manifestFile, 'utf8'));
+
+            // Load each exploration file based on manifest
+            const explorations = result.explorations.manifest.explorations || [];
+            for (const exp of explorations) {
+              const expFile = join(searchDir, exp.file);
+              if (existsSync(expFile)) {
+                try {
+                  result.explorations.data[exp.angle] = JSON.parse(readFileSync(expFile, 'utf8'));
+                } catch (e) {
+                  // Skip unreadable exploration files
+                }
+              }
+            }
+            break; // Found manifest, stop searching
+          } catch (e) {
+            result.explorations.manifest = null;
+          }
+        } else {
+          // Fallback: scan for exploration-*.json files directly
+          try {
+            const files = readdirSync(searchDir).filter(f => f.startsWith('exploration-') && f.endsWith('.json'));
+            if (files.length > 0) {
+              // Create synthetic manifest
+              result.explorations.manifest = {
+                exploration_count: files.length,
+                explorations: files.map((f, i) => ({
+                  angle: f.replace('exploration-', '').replace('.json', ''),
+                  file: f,
+                  index: i + 1
+                }))
+              };
+
+              // Load each file
+              for (const file of files) {
+                const angle = file.replace('exploration-', '').replace('.json', '');
+                try {
+                  result.explorations.data[angle] = JSON.parse(readFileSync(join(searchDir, file), 'utf8'));
+                } catch (e) {
+                  // Skip unreadable files
+                }
+              }
+              break; // Found explorations, stop searching
+            }
+          } catch (e) {
+            // Directory read failed
+          }
+        }
+      }
+    }
+
+    // Load conflict resolution decisions (conflict-resolution-decisions.json)
+    if (dataType === 'context' || dataType === 'conflict' || dataType === 'all') {
+      result.conflictResolution = null;
+
+      // Try .process/ first (standard workflow sessions)
+      const conflictFiles = [
+        join(normalizedPath, '.process', 'conflict-resolution-decisions.json'),
+        join(normalizedPath, 'conflict-resolution-decisions.json')
+      ];
+
+      for (const conflictFile of conflictFiles) {
+        if (existsSync(conflictFile)) {
+          try {
+            result.conflictResolution = JSON.parse(readFileSync(conflictFile, 'utf8'));
+            break; // Found file, stop searching
+          } catch (e) {
+            // Skip unreadable file
+          }
+        }
+      }
+    }
+
+    // Load IMPL_PLAN.md
+    if (dataType === 'impl-plan' || dataType === 'all') {
+      const implPlanFile = join(normalizedPath, 'IMPL_PLAN.md');
+      if (existsSync(implPlanFile)) {
+        try {
+          result.implPlan = readFileSync(implPlanFile, 'utf8');
+        } catch (e) {
+          result.implPlan = null;
+        }
+      }
+    }
+
+    // Load review data from .review/
+    if (dataType === 'review' || dataType === 'all') {
+      const reviewDir = join(normalizedPath, '.review');
+      result.review = {
+        state: null,
+        dimensions: [],
+        severityDistribution: null,
+        totalFindings: 0
+      };
+
+      if (existsSync(reviewDir)) {
+        // Load review-state.json
+        const stateFile = join(reviewDir, 'review-state.json');
+        if (existsSync(stateFile)) {
+          try {
+            const state = JSON.parse(readFileSync(stateFile, 'utf8'));
+            result.review.state = state;
+            result.review.severityDistribution = state.severity_distribution || {};
+            result.review.totalFindings = state.total_findings || 0;
+            result.review.phase = state.phase || 'unknown';
+            result.review.dimensionSummaries = state.dimension_summaries || {};
+            result.review.crossCuttingConcerns = state.cross_cutting_concerns || [];
+            result.review.criticalFiles = state.critical_files || [];
+          } catch (e) {
+            // Skip unreadable state
+          }
+        }
+
+        // Load dimension findings
+        const dimensionsDir = join(reviewDir, 'dimensions');
+        if (existsSync(dimensionsDir)) {
+          const files = readdirSync(dimensionsDir).filter(f => f.endsWith('.json'));
+          for (const file of files) {
+            try {
+              const dimName = file.replace('.json', '');
+              const data = JSON.parse(readFileSync(join(dimensionsDir, file), 'utf8'));
+
+              // Handle array structure: [ { findings: [...] } ]
+              let findings = [];
+              let summary = null;
+
+              if (Array.isArray(data) && data.length > 0) {
+                const dimData = data[0];
+                findings = dimData.findings || [];
+                summary = dimData.summary || null;
+              } else if (data.findings) {
+                findings = data.findings;
+                summary = data.summary || null;
+              }
+
+              result.review.dimensions.push({
+                name: dimName,
+                findings: findings,
+                summary: summary,
+                count: findings.length
+              });
+            } catch (e) {
+              // Skip unreadable files
+            }
+          }
+        }
+      }
+    }
+
+  } catch (error: unknown) {
+    console.error('Error loading session detail:', error);
+    result.error = (error as Error).message;
+  }
+
+  return result;
+}
+
+/**
+ * Update task status in a task JSON file
+ * @param {string} sessionPath - Path to session directory
+ * @param {string} taskId - Task ID (e.g., IMPL-001)
+ * @param {string} newStatus - New status (pending, in_progress, completed)
+ * @returns {Promise<Object>}
+ */
+async function updateTaskStatus(sessionPath, taskId, newStatus) {
+  // Normalize path (handle both forward and back slashes)
+  let normalizedPath = sessionPath.replace(/\\/g, '/');
+
+  // Handle Windows drive letter format
+  if (normalizedPath.match(/^[a-zA-Z]:\//)) {
+    // Already in correct format
+  } else if (normalizedPath.match(/^\/[a-zA-Z]\//)) {
+    // Convert /D/path to D:/path
+    normalizedPath = normalizedPath.charAt(1).toUpperCase() + ':' + normalizedPath.slice(2);
+  }
+
+  const taskDir = join(normalizedPath, '.task');
+
+  // Check if task directory exists
+  if (!existsSync(taskDir)) {
+    throw new Error(`Task directory not found: ${taskDir}`);
+  }
+
+  // Try to find the task file
+  let taskFile = join(taskDir, `${taskId}.json`);
+
+  if (!existsSync(taskFile)) {
+    // Try without .json if taskId already has it
+    if (taskId.endsWith('.json')) {
+      taskFile = join(taskDir, taskId);
+    }
+    if (!existsSync(taskFile)) {
+      throw new Error(`Task file not found: ${taskId}.json in ${taskDir}`);
+    }
+  }
+
+  try {
+    const content = JSON.parse(readFileSync(taskFile, 'utf8'));
+    const oldStatus = content.status || 'pending';
+    content.status = newStatus;
+
+    // Add status change timestamp
+    if (!content.status_history) {
+      content.status_history = [];
+    }
+    content.status_history.push({
+      from: oldStatus,
+      to: newStatus,
+      changed_at: new Date().toISOString()
+    });
+
+    writeFileSync(taskFile, JSON.stringify(content, null, 2), 'utf8');
+
+    return {
+      success: true,
+      taskId,
+      oldStatus,
+      newStatus,
+      file: taskFile
+    };
+  } catch (error: unknown) {
+    throw new Error(`Failed to update task ${taskId}: ${(error as Error).message}`);
+  }
+}
+
+/**
+ * Handle Session routes
+ * @returns true if route was handled, false otherwise
+ */
+export async function handleSessionRoutes(ctx: RouteContext): Promise<boolean> {
+  const { pathname, url, req, res, handlePostRequest } = ctx;
+
+  // API: Get session detail data (context, summaries, impl-plan, review)
+  if (pathname === '/api/session-detail') {
+    const sessionPath = url.searchParams.get('path');
+    const dataType = url.searchParams.get('type') || 'all';
+
+    if (!sessionPath) {
+      res.writeHead(400, { 'Content-Type': 'application/json' });
+      res.end(JSON.stringify({ error: 'Session path is required' }));
+      return true;
+    }
+
+    const detail = await getSessionDetailData(sessionPath, dataType);
+    res.writeHead(200, { 'Content-Type': 'application/json' });
+    res.end(JSON.stringify(detail));
+    return true;
+  }
+
+  // API: Update task status
+  if (pathname === '/api/update-task-status' && req.method === 'POST') {
+    handlePostRequest(req, res, async (body) => {
+      const { sessionPath, taskId, newStatus } = body;
+
+      if (!sessionPath || !taskId || !newStatus) {
+        return { error: 'sessionPath, taskId, and newStatus are required', status: 400 };
+      }
+
+      return await updateTaskStatus(sessionPath, taskId, newStatus);
+    });
+    return true;
+  }
+
+  // API: Bulk update task status
+  if (pathname === '/api/bulk-update-task-status' && req.method === 'POST') {
+    handlePostRequest(req, res, async (body) => {
+      const { sessionPath, taskIds, newStatus } = body;
+
+      if (!sessionPath || !taskIds || !newStatus) {
+        return { error: 'sessionPath, taskIds, and newStatus are required', status: 400 };
+      }
+
+      const results = [];
+      for (const taskId of taskIds) {
+        try {
+          const result = await updateTaskStatus(sessionPath, taskId, newStatus);
+          results.push(result);
+        } catch (err) {
+          results.push({ taskId, error: err.message });
+        }
+      }
+      return { success: true, results };
+    });
+    return true;
+  }
+
+  return false;
+}

ccw/src/core/routes/skills-routes.ts

@@ -0,0 +1,300 @@
+// @ts-nocheck
+/**
+ * Skills Routes Module
+ * Handles all Skills-related API endpoints
+ */
+import type { IncomingMessage, ServerResponse } from 'http';
+import { readFileSync, existsSync, readdirSync, statSync, unlinkSync, promises as fsPromises } from 'fs';
+import { join } from 'path';
+import { homedir } from 'os';
+
+export interface RouteContext {
+  pathname: string;
+  url: URL;
+  req: IncomingMessage;
+  res: ServerResponse;
+  initialPath: string;
+  handlePostRequest: (req: IncomingMessage, res: ServerResponse, handler: (body: unknown) => Promise<any>) => void;
+  broadcastToClients: (data: unknown) => void;
+}
+
+// ========== Skills Helper Functions ==========
+
+/**
+ * Parse skill frontmatter (YAML header)
+ * @param {string} content - Skill file content
+ * @returns {Object} Parsed frontmatter and content
+ */
+function parseSkillFrontmatter(content) {
+  const result = {
+    name: '',
+    description: '',
+    version: null,
+    allowedTools: [],
+    content: ''
+  };
+
+  // Check for YAML frontmatter
+  if (content.startsWith('---')) {
+    const endIndex = content.indexOf('---', 3);
+    if (endIndex > 0) {
+      const frontmatter = content.substring(3, endIndex).trim();
+      result.content = content.substring(endIndex + 3).trim();
+
+      // Parse frontmatter lines
+      const lines = frontmatter.split('\n');
+      for (const line of lines) {
+        const colonIndex = line.indexOf(':');
+        if (colonIndex > 0) {
+          const key = line.substring(0, colonIndex).trim().toLowerCase();
+          const value = line.substring(colonIndex + 1).trim();
+
+          if (key === 'name') {
+            result.name = value.replace(/^["']|["']$/g, '');
+          } else if (key === 'description') {
+            result.description = value.replace(/^["']|["']$/g, '');
+          } else if (key === 'version') {
+            result.version = value.replace(/^["']|["']$/g, '');
+          } else if (key === 'allowed-tools' || key === 'allowedtools') {
+            // Parse as comma-separated or YAML array
+            result.allowedTools = value.replace(/^\[|\]$/g, '').split(',').map(t => t.trim()).filter(Boolean);
+          }
+        }
+      }
+    }
+  } else {
+    result.content = content;
+  }
+
+  return result;
+}
+
+/**
+ * Get list of supporting files for a skill
+ * @param {string} skillDir
+ * @returns {string[]}
+ */
+function getSupportingFiles(skillDir) {
+  const files = [];
+  try {
+    const entries = readdirSync(skillDir, { withFileTypes: true });
+    for (const entry of entries) {
+      if (entry.name !== 'SKILL.md') {
+        if (entry.isFile()) {
+          files.push(entry.name);
+        } else if (entry.isDirectory()) {
+          files.push(entry.name + '/');
+        }
+      }
+    }
+  } catch (e) {
+    // Ignore errors
+  }
+  return files;
+}
+
+/**
+ * Get skills configuration from project and user directories
+ * @param {string} projectPath
+ * @returns {Object}
+ */
+function getSkillsConfig(projectPath) {
+  const result = {
+    projectSkills: [],
+    userSkills: []
+  };
+
+  try {
+    // Project skills: .claude/skills/
+    const projectSkillsDir = join(projectPath, '.claude', 'skills');
+    if (existsSync(projectSkillsDir)) {
+      const skills = readdirSync(projectSkillsDir, { withFileTypes: true });
+      for (const skill of skills) {
+        if (skill.isDirectory()) {
+          const skillMdPath = join(projectSkillsDir, skill.name, 'SKILL.md');
+          if (existsSync(skillMdPath)) {
+            const content = readFileSync(skillMdPath, 'utf8');
+            const parsed = parseSkillFrontmatter(content);
+
+            // Get supporting files
+            const skillDir = join(projectSkillsDir, skill.name);
+            const supportingFiles = getSupportingFiles(skillDir);
+
+            result.projectSkills.push({
+              name: parsed.name || skill.name,
+              description: parsed.description,
+              version: parsed.version,
+              allowedTools: parsed.allowedTools,
+              location: 'project',
+              path: skillDir,
+              supportingFiles
+            });
+          }
+        }
+      }
+    }
+
+    // User skills: ~/.claude/skills/
+    const userSkillsDir = join(homedir(), '.claude', 'skills');
+    if (existsSync(userSkillsDir)) {
+      const skills = readdirSync(userSkillsDir, { withFileTypes: true });
+      for (const skill of skills) {
+        if (skill.isDirectory()) {
+          const skillMdPath = join(userSkillsDir, skill.name, 'SKILL.md');
+          if (existsSync(skillMdPath)) {
+            const content = readFileSync(skillMdPath, 'utf8');
+            const parsed = parseSkillFrontmatter(content);
+
+            // Get supporting files
+            const skillDir = join(userSkillsDir, skill.name);
+            const supportingFiles = getSupportingFiles(skillDir);
+
+            result.userSkills.push({
+              name: parsed.name || skill.name,
+              description: parsed.description,
+              version: parsed.version,
+              allowedTools: parsed.allowedTools,
+              location: 'user',
+              path: skillDir,
+              supportingFiles
+            });
+          }
+        }
+      }
+    }
+  } catch (error) {
+    console.error('Error reading skills config:', error);
+  }
+
+  return result;
+}
+
+/**
+ * Get single skill detail
+ * @param {string} skillName
+ * @param {string} location - 'project' or 'user'
+ * @param {string} projectPath
+ * @returns {Object}
+ */
+function getSkillDetail(skillName, location, projectPath) {
+  try {
+    const baseDir = location === 'project'
+      ? join(projectPath, '.claude', 'skills')
+      : join(homedir(), '.claude', 'skills');
+
+    const skillDir = join(baseDir, skillName);
+    const skillMdPath = join(skillDir, 'SKILL.md');
+
+    if (!existsSync(skillMdPath)) {
+      return { error: 'Skill not found' };
+    }
+
+    const content = readFileSync(skillMdPath, 'utf8');
+    const parsed = parseSkillFrontmatter(content);
+    const supportingFiles = getSupportingFiles(skillDir);
+
+    return {
+      skill: {
+        name: parsed.name || skillName,
+        description: parsed.description,
+        version: parsed.version,
+        allowedTools: parsed.allowedTools,
+        content: parsed.content,
+        location,
+        path: skillDir,
+        supportingFiles
+      }
+    };
+  } catch (error) {
+    return { error: (error as Error).message };
+  }
+}
+
+/**
+ * Delete a skill
+ * @param {string} skillName
+ * @param {string} location
+ * @param {string} projectPath
+ * @returns {Object}
+ */
+function deleteSkill(skillName, location, projectPath) {
+  try {
+    const baseDir = location === 'project'
+      ? join(projectPath, '.claude', 'skills')
+      : join(homedir(), '.claude', 'skills');
+
+    const skillDir = join(baseDir, skillName);
+
+    if (!existsSync(skillDir)) {
+      return { error: 'Skill not found' };
+    }
+
+    // Recursively delete directory
+    const deleteRecursive = (dirPath) => {
+      if (existsSync(dirPath)) {
+        readdirSync(dirPath).forEach((file) => {
+          const curPath = join(dirPath, file);
+          if (statSync(curPath).isDirectory()) {
+            deleteRecursive(curPath);
+          } else {
+            unlinkSync(curPath);
+          }
+        });
+        fsPromises.rmdir(dirPath);
+      }
+    };
+
+    deleteRecursive(skillDir);
+
+    return { success: true, skillName, location };
+  } catch (error) {
+    return { error: (error as Error).message };
+  }
+}
+
+// ========== Skills API Routes ==========
+
+/**
+ * Handle Skills routes
+ * @returns true if route was handled, false otherwise
+ */
+export async function handleSkillsRoutes(ctx: RouteContext): Promise<boolean> {
+  const { pathname, url, req, res, initialPath, handlePostRequest } = ctx;
+
+  // API: Get all skills (project and user)
+  if (pathname === '/api/skills') {
+    const projectPathParam = url.searchParams.get('path') || initialPath;
+    const skillsData = getSkillsConfig(projectPathParam);
+    res.writeHead(200, { 'Content-Type': 'application/json' });
+    res.end(JSON.stringify(skillsData));
+    return true;
+  }
+
+  // API: Get single skill detail
+  if (pathname.startsWith('/api/skills/') && req.method === 'GET' && !pathname.endsWith('/skills/')) {
+    const skillName = decodeURIComponent(pathname.replace('/api/skills/', ''));
+    const location = url.searchParams.get('location') || 'project';
+    const projectPathParam = url.searchParams.get('path') || initialPath;
+    const skillDetail = getSkillDetail(skillName, location, projectPathParam);
+    if (skillDetail.error) {
+      res.writeHead(404, { 'Content-Type': 'application/json' });
+      res.end(JSON.stringify(skillDetail));
+    } else {
+      res.writeHead(200, { 'Content-Type': 'application/json' });
+      res.end(JSON.stringify(skillDetail));
+    }
+    return true;
+  }
+
+  // API: Delete skill
+  if (pathname.startsWith('/api/skills/') && req.method === 'DELETE') {
+    const skillName = decodeURIComponent(pathname.replace('/api/skills/', ''));
+    handlePostRequest(req, res, async (body) => {
+      const { location, projectPath: projectPathParam } = body;
+      return deleteSkill(skillName, location, projectPathParam || initialPath);
+    });
+    return true;
+  }
+
+  return false;
+}

ccw/src/core/routes/system-routes.ts

@@ -0,0 +1,329 @@
+// @ts-nocheck
+/**
+ * System Routes Module
+ * Handles all system-related API endpoints
+ */
+import type { IncomingMessage, ServerResponse } from 'http';
+import type { Server } from 'http';
+import { readFileSync, existsSync, promises as fsPromises } from 'fs';
+import { join } from 'path';
+import { resolvePath, getRecentPaths, trackRecentPath, removeRecentPath, normalizePathForDisplay } from '../../utils/path-resolver.js';
+import { scanSessions } from '../session-scanner.js';
+import { aggregateData } from '../data-aggregator.js';
+
+export interface RouteContext {
+  pathname: string;
+  url: URL;
+  req: IncomingMessage;
+  res: ServerResponse;
+  initialPath: string;
+  handlePostRequest: (req: IncomingMessage, res: ServerResponse, handler: (body: unknown) => Promise<any>) => void;
+  broadcastToClients: (data: unknown) => void;
+  server: Server;
+}
+
+// ========================================
+// Helper Functions
+// ========================================
+
+// Package name on npm registry
+const NPM_PACKAGE_NAME = 'claude-code-workflow';
+
+// Cache for version check (avoid too frequent requests)
+let versionCheckCache = null;
+let versionCheckTime = 0;
+const VERSION_CHECK_CACHE_TTL = 3600000; // 1 hour
+
+/**
+ * Get current package version from package.json
+ * @returns {string}
+ */
+function getCurrentVersion(): string {
+  try {
+    const packageJsonPath = join(import.meta.dirname, '../../../package.json');
+    if (existsSync(packageJsonPath)) {
+      const pkg = JSON.parse(readFileSync(packageJsonPath, 'utf8'));
+      return pkg.version || '0.0.0';
+    }
+  } catch (e) {
+    console.error('Error reading package.json:', e);
+  }
+  return '0.0.0';
+}
+
+/**
+ * Compare two semver versions
+ * @param {string} v1
+ * @param {string} v2
+ * @returns {number} 1 if v1 > v2, -1 if v1 < v2, 0 if equal
+ */
+function compareVersions(v1: string, v2: string): number {
+  const parts1 = v1.split('.').map(Number);
+  const parts2 = v2.split('.').map(Number);
+
+  for (let i = 0; i < 3; i++) {
+    const p1 = parts1[i] || 0;
+    const p2 = parts2[i] || 0;
+    if (p1 > p2) return 1;
+    if (p1 < p2) return -1;
+  }
+  return 0;
+}
+
+/**
+ * Check npm registry for latest version
+ * @returns {Promise<Object>}
+ */
+async function checkNpmVersion(): Promise<any> {
+  // Return cached result if still valid
+  const now = Date.now();
+  if (versionCheckCache && (now - versionCheckTime) < VERSION_CHECK_CACHE_TTL) {
+    return versionCheckCache;
+  }
+
+  const currentVersion = getCurrentVersion();
+
+  try {
+    // Fetch latest version from npm registry
+    const npmUrl = 'https://registry.npmjs.org/' + encodeURIComponent(NPM_PACKAGE_NAME) + '/latest';
+    const response = await fetch(npmUrl, {
+      headers: { 'Accept': 'application/json' }
+    });
+
+    if (!response.ok) {
+      throw new Error('HTTP ' + response.status);
+    }
+
+    const data = await response.json();
+    const latestVersion = data.version;
+
+    // Compare versions
+    const hasUpdate = compareVersions(latestVersion, currentVersion) > 0;
+
+    const result = {
+      currentVersion,
+      latestVersion,
+      hasUpdate,
+      packageName: NPM_PACKAGE_NAME,
+      updateCommand: 'npm update -g ' + NPM_PACKAGE_NAME,
+      checkedAt: new Date().toISOString()
+    };
+
+    // Cache the result
+    versionCheckCache = result;
+    versionCheckTime = now;
+
+    return result;
+  } catch (error: unknown) {
+    console.error('Version check failed:', (error as Error).message);
+    return {
+      currentVersion,
+      latestVersion: null,
+      hasUpdate: false,
+      error: (error as Error).message,
+      checkedAt: new Date().toISOString()
+    };
+  }
+}
+
+/**
+ * Get workflow data for a project path
+ * @param {string} projectPath
+ * @returns {Promise<Object>}
+ */
+async function getWorkflowData(projectPath: string): Promise<any> {
+  const resolvedPath = resolvePath(projectPath);
+  const workflowDir = join(resolvedPath, '.workflow');
+
+  // Track this path
+  trackRecentPath(resolvedPath);
+
+  // Check if .workflow exists
+  if (!existsSync(workflowDir)) {
+    return {
+      generatedAt: new Date().toISOString(),
+      activeSessions: [],
+      archivedSessions: [],
+      liteTasks: { litePlan: [], liteFix: [] },
+      reviewData: { dimensions: {} },
+      projectOverview: null,
+      statistics: {
+        totalSessions: 0,
+        activeSessions: 0,
+        totalTasks: 0,
+        completedTasks: 0,
+        reviewFindings: 0,
+        litePlanCount: 0,
+        liteFixCount: 0
+      },
+      projectPath: normalizePathForDisplay(resolvedPath),
+      recentPaths: getRecentPaths()
+    };
+  }
+
+  // Scan and aggregate data
+  const sessions = await scanSessions(workflowDir);
+  const data = await aggregateData(sessions, workflowDir);
+
+  data.projectPath = normalizePathForDisplay(resolvedPath);
+  data.recentPaths = getRecentPaths();
+
+  return data;
+}
+
+// ========================================
+// Route Handler
+// ========================================
+
+/**
+ * Handle System routes
+ * @returns true if route was handled, false otherwise
+ */
+export async function handleSystemRoutes(ctx: RouteContext): Promise<boolean> {
+  const { pathname, url, req, res, initialPath, handlePostRequest, broadcastToClients, server } = ctx;
+
+  // API: Get workflow data for a path
+  if (pathname === '/api/data') {
+    const projectPath = url.searchParams.get('path') || initialPath;
+    const data = await getWorkflowData(projectPath);
+
+    res.writeHead(200, { 'Content-Type': 'application/json' });
+    res.end(JSON.stringify(data));
+    return true;
+  }
+
+  // API: Get recent paths
+  if (pathname === '/api/recent-paths') {
+    const paths = getRecentPaths();
+    res.writeHead(200, { 'Content-Type': 'application/json' });
+    res.end(JSON.stringify({ paths }));
+    return true;
+  }
+
+  // API: Switch workspace path (for ccw view command)
+  if (pathname === '/api/switch-path') {
+    const newPath = url.searchParams.get('path');
+    if (!newPath) {
+      res.writeHead(400, { 'Content-Type': 'application/json' });
+      res.end(JSON.stringify({ error: 'Path is required' }));
+      return true;
+    }
+
+    const resolved = resolvePath(newPath);
+    if (!existsSync(resolved)) {
+      res.writeHead(404, { 'Content-Type': 'application/json' });
+      res.end(JSON.stringify({ error: 'Path does not exist' }));
+      return true;
+    }
+
+    // Track the path and return success
+    trackRecentPath(resolved);
+    res.writeHead(200, { 'Content-Type': 'application/json' });
+    res.end(JSON.stringify({
+      success: true,
+      path: resolved,
+      recentPaths: getRecentPaths()
+    }));
+    return true;
+  }
+
+  // API: Health check (for ccw view to detect running server)
+  if (pathname === '/api/health') {
+    res.writeHead(200, { 'Content-Type': 'application/json' });
+    res.end(JSON.stringify({ status: 'ok', timestamp: Date.now() }));
+    return true;
+  }
+
+  // API: Version check (check for npm updates)
+  if (pathname === '/api/version-check') {
+    const versionData = await checkNpmVersion();
+    res.writeHead(200, { 'Content-Type': 'application/json' });
+    res.end(JSON.stringify(versionData));
+    return true;
+  }
+
+  // API: Shutdown server (for ccw stop command)
+  if (pathname === '/api/shutdown' && req.method === 'POST') {
+    res.writeHead(200, { 'Content-Type': 'application/json' });
+    res.end(JSON.stringify({ status: 'shutting_down' }));
+
+    // Graceful shutdown
+    console.log('\n  Received shutdown signal...');
+    setTimeout(() => {
+      server.close(() => {
+        console.log('  Server stopped.\n');
+        process.exit(0);
+      });
+      // Force exit after 3 seconds if graceful shutdown fails
+      setTimeout(() => process.exit(0), 3000);
+    }, 100);
+    return true;
+  }
+
+  // API: Remove a recent path
+  if (pathname === '/api/remove-recent-path' && req.method === 'POST') {
+    handlePostRequest(req, res, async (body) => {
+      const { path } = body as { path?: string };
+      if (!path) {
+        return { error: 'path is required', status: 400 };
+      }
+      const removed = removeRecentPath(path);
+      return { success: removed, paths: getRecentPaths() };
+    });
+    return true;
+  }
+
+  // API: Read a JSON file (for fix progress tracking)
+  if (pathname === '/api/file') {
+    const filePath = url.searchParams.get('path');
+    if (!filePath) {
+      res.writeHead(400, { 'Content-Type': 'application/json' });
+      res.end(JSON.stringify({ error: 'File path is required' }));
+      return true;
+    }
+
+    try {
+      const content = await fsPromises.readFile(filePath, 'utf-8');
+      const json = JSON.parse(content);
+      res.writeHead(200, { 'Content-Type': 'application/json' });
+      res.end(JSON.stringify(json));
+    } catch (err) {
+      res.writeHead(404, { 'Content-Type': 'application/json' });
+      res.end(JSON.stringify({ error: 'File not found or invalid JSON' }));
+    }
+    return true;
+  }
+
+  // API: System notify - CLI to Server communication bridge
+  // Allows CLI commands to trigger WebSocket broadcasts for UI updates
+  if (pathname === '/api/system/notify' && req.method === 'POST') {
+    handlePostRequest(req, res, async (body) => {
+      const { type, scope, data } = body as {
+        type: 'REFRESH_REQUIRED' | 'MEMORY_UPDATED' | 'HISTORY_UPDATED' | 'INSIGHT_GENERATED';
+        scope: 'memory' | 'history' | 'insights' | 'all';
+        data?: Record<string, unknown>;
+      };
+
+      if (!type || !scope) {
+        return { error: 'type and scope are required', status: 400 };
+      }
+
+      // Map CLI notification types to WebSocket broadcast format
+      const notification = {
+        type,
+        payload: {
+          scope,
+          timestamp: new Date().toISOString(),
+          ...data
+        }
+      };
+
+      broadcastToClients(notification);
+
+      return { success: true, broadcast: true };
+    });
+    return true;
+  }
+
+  return false;
+}

ccw/src/core/websocket.ts

@@ -0,0 +1,190 @@
+// @ts-nocheck
+import { createHash } from 'crypto';
+
+// WebSocket clients for real-time notifications
+export const wsClients = new Set();
+
+export function handleWebSocketUpgrade(req, socket, head) {
+  const key = req.headers['sec-websocket-key'];
+  const acceptKey = createHash('sha1')
+    .update(key + '258EAFA5-E914-47DA-95CA-C5AB0DC85B11')
+    .digest('base64');
+
+  const responseHeaders = [
+    'HTTP/1.1 101 Switching Protocols',
+    'Upgrade: websocket',
+    'Connection: Upgrade',
+    `Sec-WebSocket-Accept: ${acceptKey}`,
+    '',
+    ''
+  ].join('\r\n');
+
+  socket.write(responseHeaders);
+
+  // Add to clients set
+  wsClients.add(socket);
+  console.log(`[WS] Client connected (${wsClients.size} total)`);
+
+  // Handle incoming messages
+  socket.on('data', (buffer) => {
+    try {
+      const frame = parseWebSocketFrame(buffer);
+      if (!frame) return;
+
+      const { opcode, payload } = frame;
+
+      switch (opcode) {
+        case 0x1: // Text frame
+          if (payload) {
+            console.log('[WS] Received:', payload);
+          }
+          break;
+        case 0x8: // Close frame
+          socket.end();
+          break;
+        case 0x9: // Ping frame - respond with Pong
+          const pongFrame = Buffer.alloc(2);
+          pongFrame[0] = 0x8A; // Pong opcode with FIN bit
+          pongFrame[1] = 0x00; // No payload
+          socket.write(pongFrame);
+          break;
+        case 0xA: // Pong frame - ignore
+          break;
+        default:
+          // Ignore other frame types (binary, continuation)
+          break;
+      }
+    } catch (e) {
+      // Ignore parse errors
+    }
+  });
+
+  // Handle disconnect
+  socket.on('close', () => {
+    wsClients.delete(socket);
+    console.log(`[WS] Client disconnected (${wsClients.size} remaining)`);
+  });
+
+  socket.on('error', () => {
+    wsClients.delete(socket);
+  });
+}
+
+/**
+ * Parse WebSocket frame (simplified)
+ * Returns { opcode, payload } or null
+ */
+export function parseWebSocketFrame(buffer) {
+  if (buffer.length < 2) return null;
+
+  const firstByte = buffer[0];
+  const opcode = firstByte & 0x0f; // Extract opcode (bits 0-3)
+
+  // Opcode types:
+  // 0x0 = continuation, 0x1 = text, 0x2 = binary
+  // 0x8 = close, 0x9 = ping, 0xA = pong
+
+  const secondByte = buffer[1];
+  const isMasked = (secondByte & 0x80) !== 0;
+  let payloadLength = secondByte & 0x7f;
+
+  let offset = 2;
+  if (payloadLength === 126) {
+    payloadLength = buffer.readUInt16BE(2);
+    offset = 4;
+  } else if (payloadLength === 127) {
+    payloadLength = Number(buffer.readBigUInt64BE(2));
+    offset = 10;
+  }
+
+  let mask = null;
+  if (isMasked) {
+    mask = buffer.slice(offset, offset + 4);
+    offset += 4;
+  }
+
+  const payload = buffer.slice(offset, offset + payloadLength);
+
+  if (isMasked && mask) {
+    for (let i = 0; i < payload.length; i++) {
+      payload[i] ^= mask[i % 4];
+    }
+  }
+
+  return { opcode, payload: payload.toString('utf8') };
+}
+
+/**
+ * Create WebSocket frame
+ */
+export function createWebSocketFrame(data) {
+  const payload = Buffer.from(JSON.stringify(data), 'utf8');
+  const length = payload.length;
+
+  let frame;
+  if (length <= 125) {
+    frame = Buffer.alloc(2 + length);
+    frame[0] = 0x81; // Text frame, FIN
+    frame[1] = length;
+    payload.copy(frame, 2);
+  } else if (length <= 65535) {
+    frame = Buffer.alloc(4 + length);
+    frame[0] = 0x81;
+    frame[1] = 126;
+    frame.writeUInt16BE(length, 2);
+    payload.copy(frame, 4);
+  } else {
+    frame = Buffer.alloc(10 + length);
+    frame[0] = 0x81;
+    frame[1] = 127;
+    frame.writeBigUInt64BE(BigInt(length), 2);
+    payload.copy(frame, 10);
+  }
+
+  return frame;
+}
+
+/**
+ * Broadcast message to all connected WebSocket clients
+ */
+export function broadcastToClients(data) {
+  const frame = createWebSocketFrame(data);
+
+  for (const client of wsClients) {
+    try {
+      client.write(frame);
+    } catch (e) {
+      wsClients.delete(client);
+    }
+  }
+
+  console.log(`[WS] Broadcast to ${wsClients.size} clients:`, data.type);
+}
+
+/**
+ * Extract session ID from file path
+ */
+export function extractSessionIdFromPath(filePath) {
+  // Normalize path
+  const normalized = filePath.replace(/\\/g, '/');
+
+  // Look for session pattern: WFS-xxx, WRS-xxx, etc.
+  const sessionMatch = normalized.match(/\/(W[A-Z]S-[^/]+)\//);
+  if (sessionMatch) {
+    return sessionMatch[1];
+  }
+
+  // Look for .workflow/.sessions/xxx pattern
+  const sessionsMatch = normalized.match(/\.workflow\/\.sessions\/([^/]+)/);
+  if (sessionsMatch) {
+    return sessionsMatch[1];
+  }
+
+  // Look for lite-plan/lite-fix pattern
+  const liteMatch = normalized.match(/\.(lite-plan|lite-fix)\/([^/]+)/);
+  if (liteMatch) {
+    return liteMatch[2];
+  }
+
+  return null;
+}

ccw/src/templates/dashboard-css/10-cli.css

@@ -198,6 +198,11 @@
   color: hsl(var(--primary));
 }
 
+.tool-type-badge.llm {
+  background: hsl(142 76% 36% / 0.15);
+  color: hsl(142 76% 36%);
+}
+
 .tool-item-right {
   display: flex;
   align-items: center;
@@ -814,6 +819,15 @@
   border-color: hsl(260 80% 60% / 0.7);
 }
 
+.cli-tool-card.tool-semantic.clickable {
+  cursor: pointer;
+}
+
+.cli-tool-card.tool-semantic.clickable:hover {
+  transform: translateY(-1px);
+  box-shadow: 0 4px 12px hsl(260 80% 60% / 0.15);
+}
+
 /* Execute Panel */
 .cli-execute-header {
   display: flex;
@@ -3064,6 +3078,211 @@
   flex-wrap: wrap;
 }
 
+/* ========================================
+ * Enhanced Native Session Display
+ * ======================================== */
+
+/* View Full Process Button in Execution Detail */
+.cli-detail-native-action {
+  margin-top: 0.75rem;
+  padding-top: 0.75rem;
+  border-top: 1px solid hsl(var(--border) / 0.5);
+}
+
+.cli-detail-native-action .btn {
+  font-size: 0.8125rem;
+  gap: 0.5rem;
+}
+
+/* Collapsible Thinking Process */
+.turn-thinking-details {
+  border: none;
+  margin: 0;
+}
+
+.turn-thinking-summary {
+  display: flex;
+  align-items: center;
+  gap: 0.375rem;
+  cursor: pointer;
+  padding: 0.5rem;
+  background: hsl(var(--warning) / 0.08);
+  border: 1px solid hsl(var(--warning) / 0.25);
+  border-radius: 0.375rem;
+  font-size: 0.75rem;
+  font-weight: 600;
+  color: hsl(var(--warning));
+  transition: all 0.2s ease;
+  list-style: none;
+}
+
+.turn-thinking-summary::-webkit-details-marker {
+  display: none;
+}
+
+.turn-thinking-summary:hover {
+  background: hsl(var(--warning) / 0.15);
+  border-color: hsl(var(--warning) / 0.4);
+}
+
+.turn-thinking-summary::before {
+  content: '▶';
+  display: inline-block;
+  margin-right: 0.25rem;
+  transition: transform 0.2s ease;
+  font-size: 0.6875rem;
+}
+
+.turn-thinking-details[open] .turn-thinking-summary::before {
+  transform: rotate(90deg);
+}
+
+.turn-thinking-content {
+  padding: 0.75rem;
+  margin-top: 0.5rem;
+  background: hsl(var(--warning) / 0.03);
+  border: 1px solid hsl(var(--warning) / 0.15);
+  border-radius: 0.375rem;
+  font-style: italic;
+}
+
+.turn-thinking-content ul {
+  margin: 0;
+  padding-left: 1.25rem;
+}
+
+.turn-thinking-content li {
+  margin-bottom: 0.375rem;
+  font-size: 0.6875rem;
+  line-height: 1.6;
+  color: hsl(var(--foreground) / 0.85);
+}
+
+/* Tool Calls Header */
+.turn-tool-calls-header {
+  display: flex;
+  align-items: center;
+  gap: 0.375rem;
+  font-size: 0.75rem;
+  font-weight: 600;
+  color: hsl(var(--muted-foreground));
+  margin-bottom: 0.625rem;
+  padding-bottom: 0.375rem;
+  border-bottom: 1px solid hsl(var(--border) / 0.5);
+}
+
+/* Collapsible Tool Calls */
+.turn-tool-call-details {
+  border: none;
+  margin-bottom: 0.5rem;
+}
+
+.turn-tool-call-summary {
+  display: flex;
+  align-items: center;
+  justify-content: space-between;
+  cursor: pointer;
+  padding: 0.5rem 0.75rem;
+  background: hsl(var(--background));
+  border: 1px solid hsl(var(--border));
+  border-radius: 0.375rem;
+  font-size: 0.7rem;
+  transition: all 0.2s ease;
+  list-style: none;
+}
+
+.turn-tool-call-summary::-webkit-details-marker {
+  display: none;
+}
+
+.turn-tool-call-summary:hover {
+  background: hsl(var(--muted) / 0.5);
+  border-color: hsl(var(--primary) / 0.4);
+}
+
+.turn-tool-call-summary::before {
+  content: '▶';
+  display: inline-block;
+  margin-right: 0.5rem;
+  transition: transform 0.2s ease;
+  font-size: 0.625rem;
+  color: hsl(var(--muted-foreground));
+}
+
+.turn-tool-call-details[open] .turn-tool-call-summary::before {
+  transform: rotate(90deg);
+}
+
+.native-tool-size {
+  font-size: 0.625rem;
+  color: hsl(var(--muted-foreground));
+  font-weight: 400;
+}
+
+.turn-tool-call-content {
+  padding: 0.75rem;
+  margin-top: 0.5rem;
+  background: hsl(var(--muted) / 0.3);
+  border: 1px solid hsl(var(--border));
+  border-radius: 0.375rem;
+  border-top-left-radius: 0;
+  border-top-right-radius: 0;
+}
+
+.turn-tool-input,
+.turn-tool-output {
+  margin-bottom: 0.75rem;
+}
+
+.turn-tool-input:last-child,
+.turn-tool-output:last-child {
+  margin-bottom: 0;
+}
+
+.turn-tool-input strong,
+.turn-tool-output strong {
+  display: block;
+  font-size: 0.6875rem;
+  font-weight: 600;
+  color: hsl(var(--foreground));
+  margin-bottom: 0.375rem;
+}
+
+.turn-tool-input pre,
+.turn-tool-output pre {
+  margin: 0;
+  padding: 0.5rem;
+  background: hsl(var(--background));
+  border: 1px solid hsl(var(--border));
+  border-radius: 0.25rem;
+  font-family: monospace;
+  font-size: 0.6875rem;
+  line-height: 1.5;
+  white-space: pre-wrap;
+  word-wrap: break-word;
+  max-height: 400px;
+  overflow-y: auto;
+}
+
+/* Improved scrollbar for tool output */
+.turn-tool-output pre::-webkit-scrollbar {
+  width: 6px;
+}
+
+.turn-tool-output pre::-webkit-scrollbar-track {
+  background: hsl(var(--muted));
+  border-radius: 3px;
+}
+
+.turn-tool-output pre::-webkit-scrollbar-thumb {
+  background: hsl(var(--muted-foreground) / 0.3);
+  border-radius: 3px;
+}
+
+.turn-tool-output pre::-webkit-scrollbar-thumb:hover {
+  background: hsl(var(--muted-foreground) / 0.5);
+}
+
 /* ========================================
  * Task Queue Sidebar - CLI Tab Styles
  * ======================================== */
@@ -3251,3 +3470,290 @@
 .cli-queue-native {
   font-size: 0.75rem;
 }
+
+/* ========================================
+ * CLI Tool Management Styles
+ * ======================================== */
+
+/* Disabled tool card */
+.cli-tool-card.disabled {
+  opacity: 0.6;
+}
+
+.cli-tool-card.disabled .cli-tool-header {
+  opacity: 0.8;
+}
+
+/* Disabled status indicator */
+.cli-tool-status.status-disabled {
+  background: hsl(var(--warning));
+}
+
+/* Warning badge */
+.cli-tool-badge.badge-warning {
+  background: hsl(var(--warning) / 0.15);
+  color: hsl(var(--warning));
+  font-size: 0.65rem;
+  padding: 0.125rem 0.375rem;
+  border-radius: 0.25rem;
+  margin-left: 0.25rem;
+}
+
+/* Compact toggle for tool cards */
+.cli-toggle-compact {
+  position: relative;
+  display: inline-block;
+  width: 28px;
+  height: 16px;
+  cursor: pointer;
+}
+
+.cli-toggle-compact input {
+  opacity: 0;
+  width: 0;
+  height: 0;
+  position: absolute;
+}
+
+.cli-toggle-slider-compact {
+  position: absolute;
+  cursor: pointer;
+  top: 0;
+  left: 0;
+  right: 0;
+  bottom: 0;
+  background-color: hsl(var(--muted));
+  transition: 0.2s;
+  border-radius: 16px;
+}
+
+.cli-toggle-slider-compact:before {
+  position: absolute;
+  content: "";
+  height: 12px;
+  width: 12px;
+  left: 2px;
+  bottom: 2px;
+  background-color: white;
+  transition: 0.2s;
+  border-radius: 50%;
+  box-shadow: 0 1px 2px rgba(0, 0, 0, 0.15);
+}
+
+.cli-toggle-compact input:checked + .cli-toggle-slider-compact {
+  background-color: hsl(var(--primary));
+}
+
+.cli-toggle-compact input:checked + .cli-toggle-slider-compact:before {
+  transform: translateX(12px);
+}
+
+.cli-toggle-compact input:focus + .cli-toggle-slider-compact {
+  box-shadow: 0 0 0 2px hsl(var(--ring) / 0.5);
+}
+
+/* Ghost button variant for destructive actions */
+.btn-ghost.text-destructive {
+  color: hsl(var(--destructive));
+}
+
+/* ========================================
+ * Tool Configuration Modal
+ * ======================================== */
+
+/* Tool item clickable */
+.tool-item.clickable {
+  cursor: pointer;
+  transition: all 0.15s ease;
+}
+
+.tool-item.clickable:hover {
+  background: hsl(var(--accent));
+  border-color: hsl(var(--primary) / 0.3);
+}
+
+.tool-item.clickable:hover .tool-config-icon {
+  opacity: 1;
+}
+
+.tool-config-icon {
+  margin-left: 0.375rem;
+  color: hsl(var(--muted-foreground));
+  opacity: 0;
+  transition: opacity 0.15s ease;
+}
+
+/* Tool Config Modal */
+.tool-config-modal {
+  display: flex;
+  flex-direction: column;
+  gap: 1.25rem;
+}
+
+.tool-config-section {
+  display: flex;
+  flex-direction: column;
+  gap: 0.5rem;
+}
+
+.tool-config-section h4 {
+  font-size: 0.75rem;
+  font-weight: 600;
+  text-transform: uppercase;
+  letter-spacing: 0.025em;
+  color: hsl(var(--muted-foreground));
+  margin: 0;
+}
+
+.tool-config-section h4 .text-muted {
+  font-weight: 400;
+  text-transform: none;
+  color: hsl(var(--muted-foreground) / 0.7);
+}
+
+/* Status Badges */
+.tool-config-badges {
+  display: flex;
+  gap: 0.5rem;
+  flex-wrap: wrap;
+}
+
+.badge {
+  display: inline-flex;
+  align-items: center;
+  gap: 0.25rem;
+  padding: 0.25rem 0.5rem;
+  font-size: 0.6875rem;
+  font-weight: 500;
+  border-radius: 9999px;
+}
+
+.badge-success {
+  background: hsl(var(--success) / 0.15);
+  color: hsl(var(--success));
+}
+
+.badge-primary {
+  background: hsl(var(--primary) / 0.15);
+  color: hsl(var(--primary));
+}
+
+.badge-muted {
+  background: hsl(var(--muted));
+  color: hsl(var(--muted-foreground));
+}
+
+/* Config Actions */
+.tool-config-actions {
+  display: flex;
+  gap: 0.5rem;
+  flex-wrap: wrap;
+}
+
+.btn-danger-outline {
+  border-color: hsl(var(--destructive) / 0.5);
+  color: hsl(var(--destructive));
+}
+
+.btn-danger-outline:hover {
+  background: hsl(var(--destructive) / 0.1);
+  border-color: hsl(var(--destructive));
+}
+
+/* Config Selects and Inputs */
+.tool-config-select,
+.tool-config-input {
+  width: 100%;
+  padding: 0.5rem 0.75rem;
+  font-size: 0.8125rem;
+  font-family: inherit;
+  border: 1px solid hsl(var(--border));
+  border-radius: 0.375rem;
+  background: hsl(var(--background));
+  color: hsl(var(--foreground));
+  transition: border-color 0.15s ease, box-shadow 0.15s ease;
+}
+
+.tool-config-select:focus,
+.tool-config-input:focus {
+  outline: none;
+  border-color: hsl(var(--primary));
+  box-shadow: 0 0 0 2px hsl(var(--primary) / 0.2);
+}
+
+.tool-config-select {
+  cursor: pointer;
+  appearance: none;
+  background-image: url("data:image/svg+xml,%3csvg xmlns='http://www.w3.org/2000/svg' fill='none' viewBox='0 0 20 20'%3e%3cpath stroke='%236b7280' stroke-linecap='round' stroke-linejoin='round' stroke-width='1.5' d='M6 8l4 4 4-4'/%3e%3c/svg%3e");
+  background-position: right 0.5rem center;
+  background-repeat: no-repeat;
+  background-size: 1.25rem;
+  padding-right: 2rem;
+}
+
+.tool-config-input.hidden {
+  display: none;
+}
+
+.tool-config-input {
+  margin-top: 0.375rem;
+}
+
+/* Config Footer */
+.tool-config-footer {
+  display: flex;
+  justify-content: flex-end;
+  gap: 0.75rem;
+  padding-top: 1rem;
+  border-top: 1px solid hsl(var(--border));
+  margin-top: 0.5rem;
+}
+
+.tool-config-footer .btn {
+  display: inline-flex;
+  align-items: center;
+  justify-content: center;
+  gap: 0.375rem;
+  padding: 0.5rem 1rem;
+  font-size: 0.8125rem;
+  font-weight: 500;
+  border-radius: 0.375rem;
+  cursor: pointer;
+  transition: all 0.15s ease;
+}
+
+.tool-config-footer .btn-outline {
+  background: transparent;
+  border: 1px solid hsl(var(--border));
+  color: hsl(var(--foreground));
+}
+
+.tool-config-footer .btn-outline:hover {
+  background: hsl(var(--muted));
+  border-color: hsl(var(--muted-foreground) / 0.3);
+}
+
+.tool-config-footer .btn-primary {
+  background: hsl(var(--primary));
+  border: 1px solid hsl(var(--primary));
+  color: hsl(var(--primary-foreground));
+}
+
+.tool-config-footer .btn-primary:hover {
+  background: hsl(var(--primary) / 0.9);
+}
+
+/* Model Select Group */
+.model-select-group {
+  display: flex;
+  flex-direction: column;
+  gap: 0.5rem;
+}
+
+.model-select-group .tool-config-input {
+  margin-top: 0;
+}
+
+.btn-ghost.text-destructive:hover {
+  background: hsl(var(--destructive) / 0.1);
+}

ccw/src/templates/dashboard-css/11-memory.css

@@ -887,6 +887,216 @@
   text-transform: uppercase;
 }
 
+/* ========== Node Details Panel ========== */
+.node-details {
+  padding: 1rem;
+}
+
+.node-detail-header {
+  display: flex;
+  align-items: flex-start;
+  gap: 0.75rem;
+  padding-bottom: 1rem;
+  border-bottom: 1px solid hsl(var(--border));
+  margin-bottom: 1rem;
+}
+
+.node-detail-icon {
+  display: flex;
+  align-items: center;
+  justify-content: center;
+  width: 2.5rem;
+  height: 2.5rem;
+  border-radius: 0.5rem;
+  flex-shrink: 0;
+}
+
+.node-detail-icon.file {
+  background: hsl(var(--primary) / 0.1);
+  color: hsl(var(--primary));
+}
+
+.node-detail-icon.module {
+  background: hsl(267, 84%, 95%);
+  color: hsl(267, 84%, 50%);
+}
+
+.node-detail-icon.component {
+  background: hsl(142, 71%, 92%);
+  color: hsl(142, 71%, 40%);
+}
+
+.node-detail-info {
+  flex: 1;
+  min-width: 0;
+}
+
+.node-detail-name {
+  font-size: 0.9375rem;
+  font-weight: 600;
+  color: hsl(var(--foreground));
+  margin-bottom: 0.25rem;
+  word-break: break-word;
+}
+
+.node-detail-path {
+  font-size: 0.75rem;
+  color: hsl(var(--muted-foreground));
+  font-family: monospace;
+  word-break: break-all;
+}
+
+.node-detail-stats {
+  display: grid;
+  grid-template-columns: repeat(3, 1fr);
+  gap: 0.75rem;
+  padding: 0.875rem;
+  background: hsl(var(--muted) / 0.3);
+  border-radius: 0.5rem;
+  margin-bottom: 1rem;
+}
+
+.detail-stat {
+  display: flex;
+  flex-direction: column;
+  align-items: center;
+  gap: 0.25rem;
+  text-align: center;
+}
+
+.detail-stat-label {
+  font-size: 0.6875rem;
+  color: hsl(var(--muted-foreground));
+  text-transform: uppercase;
+  letter-spacing: 0.025em;
+}
+
+.detail-stat-value {
+  font-size: 1rem;
+  font-weight: 600;
+  color: hsl(var(--foreground));
+}
+
+.node-associations {
+  margin-top: 1rem;
+}
+
+.associations-title {
+  display: flex;
+  align-items: center;
+  gap: 0.375rem;
+  font-size: 0.8125rem;
+  font-weight: 600;
+  color: hsl(var(--foreground));
+  margin: 0 0 0.75rem 0;
+}
+
+.associations-list {
+  display: flex;
+  flex-direction: column;
+  gap: 0.5rem;
+}
+
+.association-item {
+  display: flex;
+  align-items: center;
+  gap: 0.625rem;
+  padding: 0.625rem;
+  background: hsl(var(--background));
+  border: 1px solid hsl(var(--border));
+  border-radius: 0.375rem;
+  cursor: pointer;
+  transition: all 0.15s ease;
+}
+
+.association-item:hover {
+  background: hsl(var(--hover));
+  border-color: hsl(var(--primary) / 0.3);
+}
+
+.association-node {
+  display: flex;
+  align-items: center;
+  gap: 0.5rem;
+  flex: 1;
+  min-width: 0;
+}
+
+.association-node i {
+  color: hsl(var(--muted-foreground));
+  flex-shrink: 0;
+}
+
+.association-node span {
+  font-size: 0.8125rem;
+  font-weight: 500;
+  color: hsl(var(--foreground));
+  white-space: nowrap;
+  overflow: hidden;
+  text-overflow: ellipsis;
+}
+
+.association-icon {
+  display: flex;
+  align-items: center;
+  justify-content: center;
+  width: 1.75rem;
+  height: 1.75rem;
+  border-radius: 0.375rem;
+  background: hsl(var(--muted));
+  color: hsl(var(--muted-foreground));
+  flex-shrink: 0;
+}
+
+.association-icon.file {
+  background: hsl(var(--primary) / 0.1);
+  color: hsl(var(--primary));
+}
+
+.association-icon.module {
+  background: hsl(267, 84%, 95%);
+  color: hsl(267, 84%, 50%);
+}
+
+.association-info {
+  flex: 1;
+  min-width: 0;
+}
+
+.association-name {
+  font-size: 0.8125rem;
+  font-weight: 500;
+  color: hsl(var(--foreground));
+  white-space: nowrap;
+  overflow: hidden;
+  text-overflow: ellipsis;
+}
+
+.association-weight {
+  font-size: 0.6875rem;
+  color: hsl(var(--muted-foreground));
+  padding: 0.125rem 0.375rem;
+  background: hsl(var(--muted));
+  border-radius: 0.25rem;
+  flex-shrink: 0;
+}
+
+.node-no-associations {
+  padding: 1.5rem;
+  text-align: center;
+  color: hsl(var(--muted-foreground));
+  font-size: 0.875rem;
+}
+
+.associations-more {
+  text-align: center;
+  padding: 0.5rem;
+  font-size: 0.75rem;
+  color: hsl(var(--muted-foreground));
+  border-top: 1px solid hsl(var(--border));
+  margin-top: 0.5rem;
+}
+
 @media (max-width: 1400px) {
   .memory-columns {
     grid-template-columns: 260px 1fr 280px;

ccw/src/templates/dashboard-js/components/cli-history.js

@@ -330,6 +330,9 @@ async function showExecutionDetail(executionId, sourceDir) {
     `;
   }
 
+  // Check if native session is available
+  const hasNativeSession = conversation.hasNativeSession || conversation.nativeSessionId;
+
   const modalContent = `
     <div class="cli-detail-header">
       <div class="cli-detail-info">
@@ -344,6 +347,13 @@ async function showExecutionDetail(executionId, sourceDir) {
         <span><i data-lucide="calendar" class="w-3 h-3"></i> ${new Date(createdAt).toLocaleString()}</span>
         <span><i data-lucide="hash" class="w-3 h-3"></i> ${executionId.split('-')[0]}</span>
       </div>
+      ${hasNativeSession ? `
+        <div class="cli-detail-native-action">
+          <button class="btn btn-sm btn-primary" onclick="showNativeSessionDetail('${executionId}')">
+            <i data-lucide="eye" class="w-3.5 h-3.5"></i> View Full Process Conversation
+          </button>
+        </div>
+      ` : ''}
     </div>
     ${turnCount > 1 ? `
       <div class="cli-view-toggle">
@@ -665,26 +675,52 @@ async function showNativeSessionDetail(executionId) {
              </span>`
           : '';
 
-        // Thoughts section
+        // Thoughts section (collapsible)
         const thoughtsHtml = turn.thoughts && turn.thoughts.length > 0
           ? `<div class="native-thoughts-section">
-               <h5><i data-lucide="brain" class="w-3 h-3"></i> Thoughts</h5>
-               <ul class="native-thoughts-list">
-                 ${turn.thoughts.map(t => `<li>${escapeHtml(t)}</li>`).join('')}
-               </ul>
+               <details class="turn-thinking-details">
+                 <summary class="turn-thinking-summary">
+                   <i data-lucide="brain" class="w-3 h-3"></i>
+                   💭 Thinking Process (${turn.thoughts.length} thoughts)
+                 </summary>
+                 <div class="turn-thinking-content">
+                   <ul class="native-thoughts-list">
+                     ${turn.thoughts.map(t => `<li>${escapeHtml(t)}</li>`).join('')}
+                   </ul>
+                 </div>
+               </details>
              </div>`
           : '';
 
-        // Tool calls section
+        // Tool calls section (collapsible for each call)
         const toolCallsHtml = turn.toolCalls && turn.toolCalls.length > 0
           ? `<div class="native-tools-section">
-               <h5><i data-lucide="wrench" class="w-3 h-3"></i> Tool Calls (${turn.toolCalls.length})</h5>
+               <div class="turn-tool-calls-header">
+                 <i data-lucide="wrench" class="w-3 h-3"></i>
+                 <strong>Tool Calls (${turn.toolCalls.length})</strong>
+               </div>
                <div class="native-tools-list">
-                 ${turn.toolCalls.map(tc => `
-                   <div class="native-tool-call">
-                     <span class="native-tool-name">${escapeHtml(tc.name)}</span>
-                     ${tc.output ? `<pre class="native-tool-output">${escapeHtml(tc.output.substring(0, 500))}${tc.output.length > 500 ? '...' : ''}</pre>` : ''}
-                   </div>
+                 ${turn.toolCalls.map((tc, tcIdx) => `
+                   <details class="turn-tool-call-details" ${tcIdx === 0 ? 'open' : ''}>
+                     <summary class="turn-tool-call-summary">
+                       <span class="native-tool-name">🔧 ${escapeHtml(tc.name)}</span>
+                       ${tc.output ? `<span class="native-tool-size">(${tc.output.length} chars)</span>` : ''}
+                     </summary>
+                     <div class="turn-tool-call-content">
+                       ${tc.input ? `
+                         <div class="turn-tool-input">
+                           <strong>Input:</strong>
+                           <pre>${escapeHtml(JSON.stringify(tc.input, null, 2))}</pre>
+                         </div>
+                       ` : ''}
+                       ${tc.output ? `
+                         <div class="turn-tool-output">
+                           <strong>Output:</strong>
+                           <pre class="native-tool-output">${escapeHtml(tc.output)}</pre>
+                         </div>
+                       ` : ''}
+                     </div>
+                   </details>
                  `).join('')}
                </div>
              </div>`
@@ -758,7 +794,7 @@ async function showNativeSessionDetail(executionId) {
   // Store for export
   window._currentNativeSession = nativeSession;
 
-  showModal('Native Session Detail', modalContent, 'modal-lg');
+  showModal('Native Session Detail', modalContent, { size: 'lg' });
 }
 
 /**

ccw/src/templates/dashboard-js/components/cli-status.js

@@ -15,6 +15,15 @@ let smartContextMaxFiles = parseInt(localStorage.getItem('ccw-smart-context-max-
 // Native Resume settings
 let nativeResumeEnabled = localStorage.getItem('ccw-native-resume') !== 'false'; // default true
 
+// LLM Enhancement settings for Semantic Search
+let llmEnhancementSettings = {
+  enabled: localStorage.getItem('ccw-llm-enhancement-enabled') === 'true',
+  tool: localStorage.getItem('ccw-llm-enhancement-tool') || 'gemini',
+  fallbackTool: localStorage.getItem('ccw-llm-enhancement-fallback') || 'qwen',
+  batchSize: parseInt(localStorage.getItem('ccw-llm-enhancement-batch-size') || '5', 10),
+  timeoutMs: parseInt(localStorage.getItem('ccw-llm-enhancement-timeout') || '300000', 10)
+};
+
 // ========== Initialization ==========
 function initCliStatus() {
   // Load CLI status on init
@@ -182,12 +191,17 @@ function renderCliStatus() {
   `;
 
   // Semantic Search card (only show if CodexLens is installed)
+  const llmStatusBadge = llmEnhancementSettings.enabled 
+    ? `<span class="badge px-1.5 py-0.5 text-xs rounded bg-success/20 text-success">LLM</span>`
+    : '';
   const semanticHtml = codexLensStatus.ready ? `
-    <div class="cli-tool-card tool-semantic ${semanticStatus.available ? 'available' : 'unavailable'}">
+    <div class="cli-tool-card tool-semantic clickable ${semanticStatus.available ? 'available' : 'unavailable'}"
+         onclick="openSemanticSettingsModal()">
       <div class="cli-tool-header">
         <span class="cli-tool-status ${semanticStatus.available ? 'status-available' : 'status-unavailable'}"></span>
         <span class="cli-tool-name">Semantic Search</span>
         <span class="badge px-1.5 py-0.5 text-xs rounded ${semanticStatus.available ? 'bg-primary/20 text-primary' : 'bg-muted text-muted-foreground'}">AI</span>
+        ${llmStatusBadge}
       </div>
       <div class="cli-tool-desc text-xs text-muted-foreground mt-1">
         ${semanticStatus.available ? 'AI-powered code understanding' : 'Natural language code search'}
@@ -200,17 +214,27 @@ function renderCliStatus() {
       </div>
       <div class="cli-tool-actions flex flex-col gap-2 mt-3">
         ${!semanticStatus.available ? `
-          <button class="btn-sm btn-primary w-full flex items-center justify-center gap-1" onclick="openSemanticInstallWizard()">
+          <button class="btn-sm btn-primary w-full flex items-center justify-center gap-1" onclick="event.stopPropagation(); openSemanticInstallWizard()">
             <i data-lucide="brain" class="w-3 h-3"></i> Install AI Model
           </button>
-          <div class="flex items-center justify-center gap-1 text-xs text-muted-foreground">
-            <i data-lucide="hard-drive" class="w-3 h-3"></i>
-            <span>~500MB download</span>
+          <div class="flex items-center justify-between w-full mt-1">
+            <div class="flex items-center gap-1 text-xs text-muted-foreground">
+              <i data-lucide="hard-drive" class="w-3 h-3"></i>
+              <span>~500MB</span>
+            </div>
+            <button class="btn-sm btn-outline flex items-center gap-1" onclick="event.stopPropagation(); openSemanticSettingsModal()">
+              <i data-lucide="settings" class="w-3 h-3"></i>
+            </button>
           </div>
         ` : `
-          <div class="flex items-center gap-1 text-xs text-muted-foreground">
-            <i data-lucide="cpu" class="w-3 h-3"></i>
-            <span>bge-small-en-v1.5</span>
+          <div class="flex items-center justify-between w-full">
+            <div class="flex items-center gap-1 text-xs text-muted-foreground">
+              <i data-lucide="cpu" class="w-3 h-3"></i>
+              <span>bge-small-en-v1.5</span>
+            </div>
+            <button class="btn-sm btn-outline flex items-center gap-1" onclick="event.stopPropagation(); openSemanticSettingsModal()">
+              <i data-lucide="settings" class="w-3 h-3"></i>
+            </button>
           </div>
         `}
       </div>
@@ -550,3 +574,535 @@ async function startSemanticInstall() {
     if (window.lucide) lucide.createIcons();
   }
 }
+
+// ========== Semantic Search Settings Modal ==========
+function openSemanticSettingsModal() {
+  const availableTools = Object.entries(cliToolStatus)
+    .filter(function(entry) { return entry[1].available; })
+    .map(function(entry) { return entry[0]; });
+
+  const modal = document.createElement('div');
+  modal.id = 'semanticSettingsModal';
+  modal.className = 'fixed inset-0 bg-black/50 flex items-center justify-center z-50';
+  modal.onclick = function(e) { if (e.target === modal) closeSemanticSettingsModal(); };
+
+  const toolOptions = availableTools.map(function(tool) {
+    return '<option value="' + tool + '"' + (llmEnhancementSettings.tool === tool ? ' selected' : '') + '>' +
+      tool.charAt(0).toUpperCase() + tool.slice(1) + '</option>';
+  }).join('');
+
+  const fallbackOptions = '<option value="">None</option>' + availableTools.map(function(tool) {
+    return '<option value="' + tool + '"' + (llmEnhancementSettings.fallbackTool === tool ? ' selected' : '') + '>' +
+      tool.charAt(0).toUpperCase() + tool.slice(1) + '</option>';
+  }).join('');
+
+  const disabled = !llmEnhancementSettings.enabled ? 'disabled' : '';
+  const opacityClass = !llmEnhancementSettings.enabled ? 'opacity-50' : '';
+
+  modal.innerHTML =
+    '<div class="bg-card rounded-lg shadow-xl w-full max-w-lg mx-4 overflow-hidden" onclick="event.stopPropagation()">' +
+      '<div class="p-6">' +
+        '<div class="flex items-center gap-3 mb-4">' +
+          '<div class="w-10 h-10 rounded-full bg-primary/10 flex items-center justify-center">' +
+            '<i data-lucide="sparkles" class="w-5 h-5 text-primary"></i>' +
+          '</div>' +
+          '<div>' +
+            '<h3 class="text-lg font-semibold">Semantic Search Settings</h3>' +
+            '<p class="text-sm text-muted-foreground">Configure LLM enhancement for semantic indexing</p>' +
+          '</div>' +
+        '</div>' +
+        '<div class="space-y-4">' +
+          '<div class="flex items-center justify-between p-4 bg-muted/50 rounded-lg">' +
+            '<div>' +
+              '<h4 class="font-medium flex items-center gap-2">' +
+                '<i data-lucide="brain" class="w-4 h-4"></i>LLM Enhancement</h4>' +
+              '<p class="text-sm text-muted-foreground mt-1">Use LLM to generate code summaries for better semantic search</p>' +
+            '</div>' +
+            '<label class="cli-toggle">' +
+              '<input type="checkbox" id="llmEnhancementToggle" ' + (llmEnhancementSettings.enabled ? 'checked' : '') +
+              ' onchange="toggleLlmEnhancement(this.checked)">' +
+              '<span class="cli-toggle-slider"></span>' +
+            '</label>' +
+          '</div>' +
+          '<div class="p-4 bg-muted/30 rounded-lg space-y-4 ' + opacityClass + '" id="llmSettingsSection">' +
+            '<div class="grid grid-cols-2 gap-4">' +
+              '<div>' +
+                '<label class="block text-sm font-medium mb-2">' +
+                  '<i data-lucide="cpu" class="w-3 h-3 inline mr-1"></i>Primary LLM Tool</label>' +
+                '<select class="cli-setting-select w-full" id="llmToolSelect" onchange="updateLlmTool(this.value)" ' + disabled + '>' + toolOptions + '</select>' +
+              '</div>' +
+              '<div>' +
+                '<label class="block text-sm font-medium mb-2">' +
+                  '<i data-lucide="refresh-cw" class="w-3 h-3 inline mr-1"></i>Fallback Tool</label>' +
+                '<select class="cli-setting-select w-full" id="llmFallbackSelect" onchange="updateLlmFallback(this.value)" ' + disabled + '>' + fallbackOptions + '</select>' +
+              '</div>' +
+            '</div>' +
+            '<div class="grid grid-cols-2 gap-4">' +
+              '<div>' +
+                '<label class="block text-sm font-medium mb-2">' +
+                  '<i data-lucide="layers" class="w-3 h-3 inline mr-1"></i>Batch Size</label>' +
+                '<select class="cli-setting-select w-full" id="llmBatchSelect" onchange="updateLlmBatchSize(this.value)" ' + disabled + '>' +
+                  '<option value="1"' + (llmEnhancementSettings.batchSize === 1 ? ' selected' : '') + '>1 file</option>' +
+                  '<option value="3"' + (llmEnhancementSettings.batchSize === 3 ? ' selected' : '') + '>3 files</option>' +
+                  '<option value="5"' + (llmEnhancementSettings.batchSize === 5 ? ' selected' : '') + '>5 files</option>' +
+                  '<option value="10"' + (llmEnhancementSettings.batchSize === 10 ? ' selected' : '') + '>10 files</option>' +
+                '</select>' +
+              '</div>' +
+              '<div>' +
+                '<label class="block text-sm font-medium mb-2">' +
+                  '<i data-lucide="clock" class="w-3 h-3 inline mr-1"></i>Timeout</label>' +
+                '<select class="cli-setting-select w-full" id="llmTimeoutSelect" onchange="updateLlmTimeout(this.value)" ' + disabled + '>' +
+                  '<option value="60000"' + (llmEnhancementSettings.timeoutMs === 60000 ? ' selected' : '') + '>1 min</option>' +
+                  '<option value="180000"' + (llmEnhancementSettings.timeoutMs === 180000 ? ' selected' : '') + '>3 min</option>' +
+                  '<option value="300000"' + (llmEnhancementSettings.timeoutMs === 300000 ? ' selected' : '') + '>5 min</option>' +
+                  '<option value="600000"' + (llmEnhancementSettings.timeoutMs === 600000 ? ' selected' : '') + '>10 min</option>' +
+                '</select>' +
+              '</div>' +
+            '</div>' +
+          '</div>' +
+          '<div class="bg-primary/5 border border-primary/20 rounded-lg p-3">' +
+            '<div class="flex items-start gap-2">' +
+              '<i data-lucide="info" class="w-4 h-4 text-primary mt-0.5"></i>' +
+              '<div class="text-sm text-muted-foreground">' +
+                '<p>LLM enhancement generates code summaries and keywords for each file, improving semantic search accuracy.</p>' +
+                '<p class="mt-1">Run <code class="bg-muted px-1 rounded">codex-lens enhance</code> after enabling to process existing files.</p>' +
+              '</div>' +
+            '</div>' +
+          '</div>' +
+          '<div class="flex gap-2 pt-2">' +
+            '<button class="btn-sm btn-outline flex items-center gap-1 flex-1" onclick="runEnhanceCommand()" ' + disabled + '>' +
+              '<i data-lucide="zap" class="w-3 h-3"></i>Run Enhance Now</button>' +
+            '<button class="btn-sm btn-outline flex items-center gap-1 flex-1" onclick="viewEnhanceStatus()">' +
+              '<i data-lucide="bar-chart-2" class="w-3 h-3"></i>View Status</button>' +
+          '</div>' +
+        '</div>' +
+      '</div>' +
+      '<div class="border-t border-border p-4 flex justify-end gap-3 bg-muted/30">' +
+        '<button class="btn-outline px-4 py-2" onclick="closeSemanticSettingsModal()">Close</button>' +
+      '</div>' +
+    '</div>';
+
+  document.body.appendChild(modal);
+
+  var handleEscape = function(e) {
+    if (e.key === 'Escape') {
+      closeSemanticSettingsModal();
+      document.removeEventListener('keydown', handleEscape);
+    }
+  };
+  document.addEventListener('keydown', handleEscape);
+
+  if (window.lucide) {
+    lucide.createIcons();
+  }
+}
+
+function closeSemanticSettingsModal() {
+  var modal = document.getElementById('semanticSettingsModal');
+  if (modal) modal.remove();
+}
+
+function toggleLlmEnhancement(enabled) {
+  llmEnhancementSettings.enabled = enabled;
+  localStorage.setItem('ccw-llm-enhancement-enabled', enabled.toString());
+
+  var settingsSection = document.getElementById('llmSettingsSection');
+  if (settingsSection) {
+    settingsSection.classList.toggle('opacity-50', !enabled);
+    settingsSection.querySelectorAll('select').forEach(function(el) { el.disabled = !enabled; });
+  }
+
+  renderCliStatus();
+  showRefreshToast('LLM Enhancement ' + (enabled ? 'enabled' : 'disabled'), 'success');
+}
+
+function updateLlmTool(tool) {
+  llmEnhancementSettings.tool = tool;
+  localStorage.setItem('ccw-llm-enhancement-tool', tool);
+  showRefreshToast('Primary LLM tool set to ' + tool, 'success');
+}
+
+function updateLlmFallback(tool) {
+  llmEnhancementSettings.fallbackTool = tool;
+  localStorage.setItem('ccw-llm-enhancement-fallback', tool);
+  showRefreshToast('Fallback tool set to ' + (tool || 'none'), 'success');
+}
+
+function updateLlmBatchSize(size) {
+  llmEnhancementSettings.batchSize = parseInt(size, 10);
+  localStorage.setItem('ccw-llm-enhancement-batch-size', size);
+  showRefreshToast('Batch size set to ' + size + ' files', 'success');
+}
+
+function updateLlmTimeout(ms) {
+  llmEnhancementSettings.timeoutMs = parseInt(ms, 10);
+  localStorage.setItem('ccw-llm-enhancement-timeout', ms);
+  var mins = parseInt(ms, 10) / 60000;
+  showRefreshToast('Timeout set to ' + mins + ' minute' + (mins > 1 ? 's' : ''), 'success');
+}
+
+async function runEnhanceCommand() {
+  if (!llmEnhancementSettings.enabled) {
+    showRefreshToast('Please enable LLM Enhancement first', 'warning');
+    return;
+  }
+
+  showRefreshToast('Starting LLM enhancement...', 'info');
+  closeSemanticSettingsModal();
+
+  try {
+    var response = await fetch('/api/codexlens/enhance', {
+      method: 'POST',
+      headers: { 'Content-Type': 'application/json' },
+      body: JSON.stringify({
+        path: projectPath,
+        tool: llmEnhancementSettings.tool,
+        batchSize: llmEnhancementSettings.batchSize,
+        timeoutMs: llmEnhancementSettings.timeoutMs
+      })
+    });
+
+    var result = await response.json();
+    if (result.success) {
+      var enhanced = result.result?.enhanced || 0;
+      showRefreshToast('Enhanced ' + enhanced + ' files with LLM', 'success');
+    } else {
+      showRefreshToast('Enhance failed: ' + result.error, 'error');
+    }
+  } catch (err) {
+    showRefreshToast('Enhance error: ' + err.message, 'error');
+  }
+}
+
+function viewEnhanceStatus() {
+  openSemanticMetadataViewer();
+}
+
+// ========== Semantic Metadata Viewer ==========
+var semanticMetadataCache = {
+  entries: [],
+  total: 0,
+  offset: 0,
+  limit: 50,
+  loading: false
+};
+
+async function openSemanticMetadataViewer() {
+  closeSemanticSettingsModal();
+
+  var modal = document.createElement('div');
+  modal.id = 'semanticMetadataModal';
+  modal.className = 'generic-modal-overlay';
+  modal.onclick = function(e) { if (e.target === modal) closeSemanticMetadataViewer(); };
+
+  modal.innerHTML =
+    '<div class="generic-modal large" onclick="event.stopPropagation()">' +
+      '<div class="generic-modal-header">' +
+        '<div class="flex items-center gap-3">' +
+          '<i data-lucide="database" class="w-5 h-5 text-primary"></i>' +
+          '<h3 class="generic-modal-title">Semantic Metadata Browser</h3>' +
+          '<span id="semanticMetadataCount" class="badge bg-muted text-muted-foreground px-2 py-0.5 text-xs rounded">Loading...</span>' +
+        '</div>' +
+        '<button class="generic-modal-close" onclick="closeSemanticMetadataViewer()">' +
+          '<i data-lucide="x" class="w-4 h-4"></i>' +
+        '</button>' +
+      '</div>' +
+      '<div class="generic-modal-body p-0">' +
+        '<div class="semantic-viewer-toolbar">' +
+          '<div class="flex items-center gap-3">' +
+            '<select id="semanticToolFilter" class="cli-setting-select" onchange="filterSemanticByTool(this.value)">' +
+              '<option value="">All Tools</option>' +
+              '<option value="gemini">Gemini</option>' +
+              '<option value="qwen">Qwen</option>' +
+            '</select>' +
+            '<button class="btn-sm btn-outline flex items-center gap-1" onclick="refreshSemanticMetadata()">' +
+              '<i data-lucide="refresh-cw" class="w-3 h-3"></i> Refresh' +
+            '</button>' +
+          '</div>' +
+          '<div class="flex items-center gap-2 text-sm text-muted-foreground">' +
+            '<span id="semanticPaginationInfo">-</span>' +
+          '</div>' +
+        '</div>' +
+        '<div id="semanticMetadataTableContainer" class="semantic-table-container">' +
+          '<div class="semantic-loading">' +
+            '<div class="animate-spin w-6 h-6 border-2 border-primary border-t-transparent rounded-full"></div>' +
+            '<span>Loading metadata...</span>' +
+          '</div>' +
+        '</div>' +
+        '<div class="semantic-viewer-footer">' +
+          '<button id="semanticPrevBtn" class="btn-sm btn-outline" onclick="semanticPrevPage()" disabled>' +
+            '<i data-lucide="chevron-left" class="w-4 h-4"></i> Previous' +
+          '</button>' +
+          '<div class="flex items-center gap-2">' +
+            '<span class="text-sm text-muted-foreground">Page</span>' +
+            '<select id="semanticPageSelect" class="cli-setting-select" onchange="semanticGoToPage(this.value)">' +
+              '<option value="0">1</option>' +
+            '</select>' +
+          '</div>' +
+          '<button id="semanticNextBtn" class="btn-sm btn-outline" onclick="semanticNextPage()" disabled>' +
+            'Next <i data-lucide="chevron-right" class="w-4 h-4"></i>' +
+          '</button>' +
+        '</div>' +
+      '</div>' +
+    '</div>';
+
+  document.body.appendChild(modal);
+
+  requestAnimationFrame(function() {
+    modal.classList.add('active');
+  });
+
+  var handleEscape = function(e) {
+    if (e.key === 'Escape') {
+      closeSemanticMetadataViewer();
+      document.removeEventListener('keydown', handleEscape);
+    }
+  };
+  document.addEventListener('keydown', handleEscape);
+
+  if (window.lucide) {
+    lucide.createIcons();
+  }
+
+  await loadSemanticMetadata();
+}
+
+function closeSemanticMetadataViewer() {
+  var modal = document.getElementById('semanticMetadataModal');
+  if (modal) {
+    modal.classList.remove('active');
+    setTimeout(function() { modal.remove(); }, 200);
+  }
+}
+
+async function loadSemanticMetadata(offset, toolFilter) {
+  offset = typeof offset === 'number' ? offset : semanticMetadataCache.offset;
+  toolFilter = toolFilter !== undefined ? toolFilter : (document.getElementById('semanticToolFilter')?.value || '');
+
+  semanticMetadataCache.loading = true;
+
+  var container = document.getElementById('semanticMetadataTableContainer');
+  if (container) {
+    container.innerHTML =
+      '<div class="semantic-loading">' +
+        '<div class="animate-spin w-6 h-6 border-2 border-primary border-t-transparent rounded-full"></div>' +
+        '<span>Loading metadata...</span>' +
+      '</div>';
+  }
+
+  try {
+    var url = '/api/codexlens/semantic/metadata?offset=' + offset + '&limit=' + semanticMetadataCache.limit;
+    if (toolFilter) {
+      url += '&tool=' + encodeURIComponent(toolFilter);
+    }
+
+    var response = await fetch(url);
+    var data = await response.json();
+
+    if (data.success && data.result) {
+      semanticMetadataCache.entries = data.result.entries || [];
+      semanticMetadataCache.total = data.result.total || 0;
+      semanticMetadataCache.offset = offset;
+
+      renderSemanticMetadataTable();
+      updateSemanticPagination();
+    } else {
+      container.innerHTML =
+        '<div class="semantic-empty">' +
+          '<i data-lucide="alert-circle" class="w-8 h-8 text-muted-foreground"></i>' +
+          '<p>Error loading metadata: ' + (data.error || 'Unknown error') + '</p>' +
+        '</div>';
+      if (window.lucide) lucide.createIcons();
+    }
+  } catch (err) {
+    container.innerHTML =
+      '<div class="semantic-empty">' +
+        '<i data-lucide="alert-circle" class="w-8 h-8 text-muted-foreground"></i>' +
+        '<p>Error: ' + err.message + '</p>' +
+      '</div>';
+    if (window.lucide) lucide.createIcons();
+  }
+
+  semanticMetadataCache.loading = false;
+}
+
+function escapeHtmlSemantic(text) {
+  if (!text) return '';
+  var div = document.createElement('div');
+  div.textContent = text;
+  return div.innerHTML;
+}
+
+function renderSemanticMetadataTable() {
+  var container = document.getElementById('semanticMetadataTableContainer');
+  if (!container) return;
+
+  var entries = semanticMetadataCache.entries;
+
+  if (!entries.length) {
+    container.innerHTML =
+      '<div class="semantic-empty">' +
+        '<i data-lucide="database" class="w-12 h-12 text-muted-foreground mb-3"></i>' +
+        '<p class="text-lg font-medium">No semantic metadata found</p>' +
+        '<p class="text-sm text-muted-foreground mt-1">Run \'codex-lens enhance\' to generate metadata for indexed files.</p>' +
+        '<button class="btn-sm btn-primary mt-4" onclick="closeSemanticMetadataViewer(); runEnhanceCommand();">' +
+          '<i data-lucide="zap" class="w-3 h-3 mr-1"></i> Run Enhance' +
+        '</button>' +
+      '</div>';
+    if (window.lucide) lucide.createIcons();
+    return;
+  }
+
+  var rows = entries.map(function(entry, idx) {
+    var keywordsHtml = (entry.keywords || []).slice(0, 4).map(function(k) {
+      return '<span class="semantic-keyword">' + escapeHtmlSemantic(k) + '</span>';
+    }).join('');
+    if ((entry.keywords || []).length > 4) {
+      keywordsHtml += '<span class="semantic-keyword-more">+' + (entry.keywords.length - 4) + '</span>';
+    }
+
+    var date = entry.generated_at ? new Date(entry.generated_at * 1000).toLocaleDateString() : '-';
+
+    return (
+      '<tr class="semantic-row" onclick="toggleSemanticDetail(' + idx + ')">' +
+        '<td class="semantic-cell-file">' +
+          '<div class="flex items-center gap-2">' +
+            '<i data-lucide="file-code" class="w-4 h-4 text-muted-foreground"></i>' +
+            '<span class="font-medium">' + escapeHtmlSemantic(entry.file_name || '-') + '</span>' +
+          '</div>' +
+          '<div class="text-xs text-muted-foreground truncate" title="' + escapeHtmlSemantic(entry.full_path || '') + '">' +
+            escapeHtmlSemantic(entry.full_path || '-') +
+          '</div>' +
+        '</td>' +
+        '<td class="semantic-cell-lang">' + escapeHtmlSemantic(entry.language || '-') + '</td>' +
+        '<td class="semantic-cell-purpose">' + escapeHtmlSemantic((entry.purpose || '-').substring(0, 50)) +
+          ((entry.purpose || '').length > 50 ? '...' : '') + '</td>' +
+        '<td class="semantic-cell-keywords">' + (keywordsHtml || '-') + '</td>' +
+        '<td class="semantic-cell-tool">' +
+          '<span class="tool-badge tool-' + (entry.llm_tool || 'unknown') + '">' +
+            escapeHtmlSemantic(entry.llm_tool || '-') +
+          '</span>' +
+        '</td>' +
+        '<td class="semantic-cell-date">' + date + '</td>' +
+      '</tr>' +
+      '<tr id="semanticDetail' + idx + '" class="semantic-detail-row hidden">' +
+        '<td colspan="6">' +
+          '<div class="semantic-detail-content">' +
+            '<div class="semantic-detail-section">' +
+              '<h4><i data-lucide="file-text" class="w-3 h-3"></i> Summary</h4>' +
+              '<p>' + escapeHtmlSemantic(entry.summary || 'No summary available') + '</p>' +
+            '</div>' +
+            '<div class="semantic-detail-section">' +
+              '<h4><i data-lucide="tag" class="w-3 h-3"></i> All Keywords</h4>' +
+              '<div class="semantic-keywords-full">' +
+                (entry.keywords || []).map(function(k) {
+                  return '<span class="semantic-keyword">' + escapeHtmlSemantic(k) + '</span>';
+                }).join('') +
+              '</div>' +
+            '</div>' +
+            '<div class="semantic-detail-meta">' +
+              '<span><i data-lucide="hash" class="w-3 h-3"></i> ' + (entry.line_count || 0) + ' lines</span>' +
+              '<span><i data-lucide="cpu" class="w-3 h-3"></i> ' + escapeHtmlSemantic(entry.llm_tool || 'Unknown') + '</span>' +
+              '<span><i data-lucide="calendar" class="w-3 h-3"></i> ' + date + '</span>' +
+            '</div>' +
+          '</div>' +
+        '</td>' +
+      '</tr>'
+    );
+  }).join('');
+
+  container.innerHTML =
+    '<table class="semantic-table">' +
+      '<thead>' +
+        '<tr>' +
+          '<th>File</th>' +
+          '<th>Language</th>' +
+          '<th>Purpose</th>' +
+          '<th>Keywords</th>' +
+          '<th>Tool</th>' +
+          '<th>Date</th>' +
+        '</tr>' +
+      '</thead>' +
+      '<tbody>' + rows + '</tbody>' +
+    '</table>';
+
+  if (window.lucide) lucide.createIcons();
+}
+
+function toggleSemanticDetail(idx) {
+  var detailRow = document.getElementById('semanticDetail' + idx);
+  if (detailRow) {
+    detailRow.classList.toggle('hidden');
+    if (window.lucide) lucide.createIcons();
+  }
+}
+
+function updateSemanticPagination() {
+  var total = semanticMetadataCache.total;
+  var offset = semanticMetadataCache.offset;
+  var limit = semanticMetadataCache.limit;
+  var entries = semanticMetadataCache.entries;
+
+  var countBadge = document.getElementById('semanticMetadataCount');
+  if (countBadge) {
+    countBadge.textContent = total + ' entries';
+  }
+
+  var paginationInfo = document.getElementById('semanticPaginationInfo');
+  if (paginationInfo) {
+    if (total > 0) {
+      paginationInfo.textContent = (offset + 1) + '-' + (offset + entries.length) + ' of ' + total;
+    } else {
+      paginationInfo.textContent = 'No entries';
+    }
+  }
+
+  var pageSelect = document.getElementById('semanticPageSelect');
+  if (pageSelect) {
+    var totalPages = Math.ceil(total / limit) || 1;
+    var currentPage = Math.floor(offset / limit);
+
+    pageSelect.innerHTML = '';
+    for (var i = 0; i < totalPages; i++) {
+      var opt = document.createElement('option');
+      opt.value = i;
+      opt.textContent = i + 1;
+      if (i === currentPage) opt.selected = true;
+      pageSelect.appendChild(opt);
+    }
+  }
+
+  var prevBtn = document.getElementById('semanticPrevBtn');
+  var nextBtn = document.getElementById('semanticNextBtn');
+  if (prevBtn) prevBtn.disabled = offset === 0;
+  if (nextBtn) nextBtn.disabled = offset + limit >= total;
+}
+
+function semanticPrevPage() {
+  if (semanticMetadataCache.offset > 0) {
+    loadSemanticMetadata(Math.max(0, semanticMetadataCache.offset - semanticMetadataCache.limit));
+  }
+}
+
+function semanticNextPage() {
+  if (semanticMetadataCache.offset + semanticMetadataCache.limit < semanticMetadataCache.total) {
+    loadSemanticMetadata(semanticMetadataCache.offset + semanticMetadataCache.limit);
+  }
+}
+
+function semanticGoToPage(pageIndex) {
+  var offset = parseInt(pageIndex, 10) * semanticMetadataCache.limit;
+  loadSemanticMetadata(offset);
+}
+
+function filterSemanticByTool(tool) {
+  loadSemanticMetadata(0, tool);
+}
+
+function refreshSemanticMetadata() {
+  loadSemanticMetadata(semanticMetadataCache.offset);
+}
+
+function getLlmEnhancementSettings() {
+  return Object.assign({}, llmEnhancementSettings);
+}

ccw/src/templates/dashboard-js/components/notifications.js

@@ -194,6 +194,50 @@ function handleNotification(data) {
       }
       break;
 
+    // CLI Review Events
+    case 'CLI_REVIEW_UPDATED':
+      if (typeof handleCliReviewUpdated === 'function') {
+        handleCliReviewUpdated(payload);
+      }
+      // Also refresh CLI history to show review status
+      if (typeof refreshCliHistory === 'function') {
+        refreshCliHistory();
+      }
+      break;
+
+    // System Notify Events (from CLI commands)
+    case 'REFRESH_REQUIRED':
+      handleRefreshRequired(payload);
+      break;
+
+    case 'MEMORY_UPDATED':
+      if (typeof handleMemoryUpdated === 'function') {
+        handleMemoryUpdated(payload);
+      }
+      // Force refresh of memory view if active
+      if (getCurrentView && getCurrentView() === 'memory') {
+        if (typeof loadMemoryStats === 'function') {
+          loadMemoryStats().then(function() {
+            if (typeof renderHotspotsColumn === 'function') renderHotspotsColumn();
+          });
+        }
+      }
+      break;
+
+    case 'HISTORY_UPDATED':
+      // Refresh CLI history when updated externally
+      if (typeof refreshCliHistory === 'function') {
+        refreshCliHistory();
+      }
+      break;
+
+    case 'INSIGHT_GENERATED':
+      // Refresh insights when new insight is generated
+      if (typeof loadInsightsHistory === 'function') {
+        loadInsightsHistory();
+      }
+      break;
+
     default:
       console.log('[WS] Unknown notification type:', type);
   }
@@ -427,6 +471,60 @@ async function refreshWorkspaceData(newData) {
   lastDataHash = calculateDataHash();
 }
 
+/**
+ * Handle REFRESH_REQUIRED events from CLI commands
+ * @param {Object} payload - Contains scope (memory|history|insights|all)
+ */
+function handleRefreshRequired(payload) {
+  const scope = payload?.scope || 'all';
+  console.log('[WS] Refresh required for scope:', scope);
+
+  switch (scope) {
+    case 'memory':
+      // Refresh memory stats and graph
+      if (typeof loadMemoryStats === 'function') {
+        loadMemoryStats().then(function() {
+          if (typeof renderHotspotsColumn === 'function') renderHotspotsColumn();
+        });
+      }
+      if (typeof loadMemoryGraph === 'function') {
+        loadMemoryGraph();
+      }
+      break;
+
+    case 'history':
+      // Refresh CLI history
+      if (typeof refreshCliHistory === 'function') {
+        refreshCliHistory();
+      }
+      break;
+
+    case 'insights':
+      // Refresh insights history
+      if (typeof loadInsightsHistory === 'function') {
+        loadInsightsHistory();
+      }
+      break;
+
+    case 'all':
+    default:
+      // Refresh everything
+      refreshIfNeeded();
+      if (typeof loadMemoryStats === 'function') {
+        loadMemoryStats().then(function() {
+          if (typeof renderHotspotsColumn === 'function') renderHotspotsColumn();
+        });
+      }
+      if (typeof refreshCliHistory === 'function') {
+        refreshCliHistory();
+      }
+      if (typeof loadInsightsHistory === 'function') {
+        loadInsightsHistory();
+      }
+      break;
+  }
+}
+
 // ========== Cleanup ==========
 function stopAutoRefresh() {
   if (autoRefreshInterval) {

ccw/src/templates/dashboard-js/views/cli-manager.js

@@ -6,6 +6,8 @@ var currentCliExecution = null;
 var cliExecutionOutput = '';
 var ccwInstallations = [];
 var ccwEndpointTools = [];
+var cliToolConfig = null;  // Store loaded CLI config
+var predefinedModels = {}; // Store predefined models per tool
 
 // ========== CCW Installations ==========
 async function loadCcwInstallations() {
@@ -37,6 +39,271 @@ async function loadCcwEndpointTools() {
   }
 }
 
+// ========== CLI Tool Configuration ==========
+async function loadCliToolConfig() {
+  try {
+    var response = await fetch('/api/cli/config');
+    if (!response.ok) throw new Error('Failed to load CLI config');
+    var data = await response.json();
+    cliToolConfig = data.config || null;
+    predefinedModels = data.predefinedModels || {};
+    return data;
+  } catch (err) {
+    console.error('Failed to load CLI config:', err);
+    cliToolConfig = null;
+    predefinedModels = {};
+    return null;
+  }
+}
+
+async function updateCliToolConfig(tool, updates) {
+  try {
+    var response = await fetch('/api/cli/config/' + tool, {
+      method: 'PUT',
+      headers: { 'Content-Type': 'application/json' },
+      body: JSON.stringify(updates)
+    });
+    if (!response.ok) throw new Error('Failed to update CLI config');
+    var data = await response.json();
+    if (data.success && cliToolConfig && cliToolConfig.tools) {
+      cliToolConfig.tools[tool] = data.config;
+    }
+    return data;
+  } catch (err) {
+    console.error('Failed to update CLI config:', err);
+    throw err;
+  }
+}
+
+// ========== Tool Configuration Modal ==========
+async function showToolConfigModal(toolName) {
+  // Load config if not already loaded
+  if (!cliToolConfig) {
+    await loadCliToolConfig();
+  }
+
+  var toolConfig = cliToolConfig && cliToolConfig.tools ? cliToolConfig.tools[toolName] : null;
+  var models = predefinedModels[toolName] || [];
+  var status = cliToolStatus[toolName] || {};
+
+  if (!toolConfig) {
+    toolConfig = { enabled: true, primaryModel: '', secondaryModel: '' };
+  }
+
+  var content = buildToolConfigModalContent(toolName, toolConfig, models, status);
+  showModal('Configure ' + toolName.charAt(0).toUpperCase() + toolName.slice(1), content, { size: 'md' });
+
+  // Initialize event handlers after modal is shown
+  setTimeout(function() {
+    initToolConfigModalEvents(toolName, toolConfig, models);
+  }, 100);
+}
+
+function buildToolConfigModalContent(tool, config, models, status) {
+  var isAvailable = status.available;
+  var isEnabled = config.enabled;
+
+  // Check if model is custom (not in predefined list or empty)
+  var isPrimaryCustom = !config.primaryModel || models.indexOf(config.primaryModel) === -1;
+  var isSecondaryCustom = !config.secondaryModel || models.indexOf(config.secondaryModel) === -1;
+
+  var modelsOptionsHtml = function(selected, isCustom) {
+    var html = '';
+    for (var i = 0; i < models.length; i++) {
+      var m = models[i];
+      html += '<option value="' + escapeHtml(m) + '"' + (m === selected && !isCustom ? ' selected' : '') + '>' + escapeHtml(m) + '</option>';
+    }
+    html += '<option value="__custom__"' + (isCustom ? ' selected' : '') + '>Custom...</option>';
+    return html;
+  };
+
+  return '<div class="tool-config-modal">' +
+    // Status Section
+    '<div class="tool-config-section">' +
+      '<h4>Status</h4>' +
+      '<div class="tool-config-badges">' +
+        '<span class="badge ' + (isAvailable ? 'badge-success' : 'badge-muted') + '">' +
+          '<i data-lucide="' + (isAvailable ? 'check-circle' : 'circle-dashed') + '" class="w-3 h-3"></i> ' +
+          (isAvailable ? 'Installed' : 'Not Installed') +
+        '</span>' +
+        '<span class="badge ' + (isEnabled ? 'badge-primary' : 'badge-muted') + '">' +
+          '<i data-lucide="' + (isEnabled ? 'toggle-right' : 'toggle-left') + '" class="w-3 h-3"></i> ' +
+          (isEnabled ? 'Enabled' : 'Disabled') +
+        '</span>' +
+      '</div>' +
+    '</div>' +
+
+    // Actions Section
+    '<div class="tool-config-section">' +
+      '<h4>Actions</h4>' +
+      '<div class="tool-config-actions">' +
+        '<button class="btn-sm ' + (isEnabled ? 'btn-outline' : 'btn-primary') + '" id="toggleEnableBtn" ' + (!isAvailable ? 'disabled' : '') + '>' +
+          '<i data-lucide="' + (isEnabled ? 'toggle-left' : 'toggle-right') + '" class="w-3 h-3"></i> ' +
+          (isEnabled ? 'Disable' : 'Enable') +
+        '</button>' +
+        '<button class="btn-sm ' + (isAvailable ? 'btn-outline btn-danger-outline' : 'btn-primary') + '" id="installBtn">' +
+          '<i data-lucide="' + (isAvailable ? 'trash-2' : 'download') + '" class="w-3 h-3"></i> ' +
+          (isAvailable ? 'Uninstall' : 'Install') +
+        '</button>' +
+      '</div>' +
+    '</div>' +
+
+    // Primary Model Section
+    '<div class="tool-config-section">' +
+      '<h4>Primary Model <span class="text-muted">(CLI endpoint calls)</span></h4>' +
+      '<div class="model-select-group">' +
+        '<select id="primaryModelSelect" class="tool-config-select">' +
+          modelsOptionsHtml(config.primaryModel, isPrimaryCustom) +
+        '</select>' +
+        '<input type="text" id="primaryModelCustom" class="tool-config-input" ' +
+          'style="display: ' + (isPrimaryCustom ? 'block' : 'none') + ';" ' +
+          'placeholder="Enter model name (e.g., gemini-2.5-pro)" ' +
+          'value="' + (isPrimaryCustom && config.primaryModel ? escapeHtml(config.primaryModel) : '') + '" />' +
+      '</div>' +
+    '</div>' +
+
+    // Secondary Model Section
+    '<div class="tool-config-section">' +
+      '<h4>Secondary Model <span class="text-muted">(internal tools)</span></h4>' +
+      '<div class="model-select-group">' +
+        '<select id="secondaryModelSelect" class="tool-config-select">' +
+          modelsOptionsHtml(config.secondaryModel, isSecondaryCustom) +
+        '</select>' +
+        '<input type="text" id="secondaryModelCustom" class="tool-config-input" ' +
+          'style="display: ' + (isSecondaryCustom ? 'block' : 'none') + ';" ' +
+          'placeholder="Enter model name (e.g., gemini-2.5-flash)" ' +
+          'value="' + (isSecondaryCustom && config.secondaryModel ? escapeHtml(config.secondaryModel) : '') + '" />' +
+      '</div>' +
+    '</div>' +
+
+    // Footer
+    '<div class="tool-config-footer">' +
+      '<button class="btn btn-outline" onclick="closeModal()">' + t('common.cancel') + '</button>' +
+      '<button class="btn btn-primary" id="saveConfigBtn">' +
+        '<i data-lucide="save" class="w-3.5 h-3.5"></i> ' + t('common.save') +
+      '</button>' +
+    '</div>' +
+  '</div>';
+}
+
+function initToolConfigModalEvents(tool, currentConfig, models) {
+  // Toggle Enable/Disable
+  var toggleBtn = document.getElementById('toggleEnableBtn');
+  if (toggleBtn) {
+    toggleBtn.onclick = async function() {
+      var newEnabled = !currentConfig.enabled;
+      try {
+        await updateCliToolConfig(tool, { enabled: newEnabled });
+        showRefreshToast(tool + ' ' + (newEnabled ? 'enabled' : 'disabled'), 'success');
+        closeModal();
+        renderToolsSection();
+        if (window.lucide) lucide.createIcons();
+      } catch (err) {
+        showRefreshToast('Failed to update: ' + err.message, 'error');
+      }
+    };
+  }
+
+  // Install/Uninstall
+  var installBtn = document.getElementById('installBtn');
+  if (installBtn) {
+    installBtn.onclick = async function() {
+      var status = cliToolStatus[tool] || {};
+      var endpoint = status.available ? '/api/cli/uninstall' : '/api/cli/install';
+      var action = status.available ? 'uninstalling' : 'installing';
+
+      showRefreshToast(tool.charAt(0).toUpperCase() + tool.slice(1) + ' ' + action + '...', 'info');
+      closeModal();
+
+      try {
+        var response = await fetch(endpoint, {
+          method: 'POST',
+          headers: { 'Content-Type': 'application/json' },
+          body: JSON.stringify({ tool: tool })
+        });
+        var result = await response.json();
+
+        if (result.success) {
+          showRefreshToast(result.message || (tool + ' ' + (status.available ? 'uninstalled' : 'installed')), 'success');
+          await loadCliToolStatus();
+          renderToolsSection();
+          if (window.lucide) lucide.createIcons();
+        } else {
+          showRefreshToast(result.error || 'Operation failed', 'error');
+        }
+      } catch (err) {
+        showRefreshToast('Failed: ' + err.message, 'error');
+      }
+    };
+  }
+
+  // Model select handlers
+  var primarySelect = document.getElementById('primaryModelSelect');
+  var primaryCustom = document.getElementById('primaryModelCustom');
+  var secondarySelect = document.getElementById('secondaryModelSelect');
+  var secondaryCustom = document.getElementById('secondaryModelCustom');
+
+  if (primarySelect && primaryCustom) {
+    primarySelect.onchange = function() {
+      if (this.value === '__custom__') {
+        primaryCustom.style.display = 'block';
+        primaryCustom.focus();
+      } else {
+        primaryCustom.style.display = 'none';
+        primaryCustom.value = '';
+      }
+    };
+  }
+
+  if (secondarySelect && secondaryCustom) {
+    secondarySelect.onchange = function() {
+      if (this.value === '__custom__') {
+        secondaryCustom.style.display = 'block';
+        secondaryCustom.focus();
+      } else {
+        secondaryCustom.style.display = 'none';
+        secondaryCustom.value = '';
+      }
+    };
+  }
+
+  // Save button
+  var saveBtn = document.getElementById('saveConfigBtn');
+  if (saveBtn) {
+    saveBtn.onclick = async function() {
+      var primaryModel = primarySelect.value === '__custom__'
+        ? primaryCustom.value.trim()
+        : primarySelect.value;
+      var secondaryModel = secondarySelect.value === '__custom__'
+        ? secondaryCustom.value.trim()
+        : secondarySelect.value;
+
+      if (!primaryModel) {
+        showRefreshToast('Primary model is required', 'error');
+        return;
+      }
+      if (!secondaryModel) {
+        showRefreshToast('Secondary model is required', 'error');
+        return;
+      }
+
+      try {
+        await updateCliToolConfig(tool, {
+          primaryModel: primaryModel,
+          secondaryModel: secondaryModel
+        });
+        showRefreshToast('Configuration saved', 'success');
+        closeModal();
+      } catch (err) {
+        showRefreshToast('Failed to save: ' + err.message, 'error');
+      }
+    };
+  }
+
+  // Initialize lucide icons in modal
+  if (window.lucide) lucide.createIcons();
+}
+
 // ========== Rendering ==========
 async function renderCliManager() {
   var container = document.getElementById('mainContent');
@@ -94,12 +361,13 @@ function renderToolsSection() {
     var isAvailable = status.available;
     var isDefault = defaultCliTool === tool;
 
-    return '<div class="tool-item ' + (isAvailable ? 'available' : 'unavailable') + '">' +
+    return '<div class="tool-item clickable ' + (isAvailable ? 'available' : 'unavailable') + '" onclick="showToolConfigModal(\'' + tool + '\')">' +
       '<div class="tool-item-left">' +
         '<span class="tool-status-dot ' + (isAvailable ? 'status-available' : 'status-unavailable') + '"></span>' +
         '<div class="tool-item-info">' +
           '<div class="tool-item-name">' + tool.charAt(0).toUpperCase() + tool.slice(1) +
             (isDefault ? '<span class="tool-default-badge">' + t('cli.default') + '</span>' : '') +
+            '<i data-lucide="settings" class="w-3 h-3 tool-config-icon"></i>' +
           '</div>' +
           '<div class="tool-item-desc">' + toolDescriptions[tool] + '</div>' +
         '</div>' +
@@ -109,7 +377,7 @@ function renderToolsSection() {
           ? '<span class="tool-status-text success"><i data-lucide="check-circle" class="w-3.5 h-3.5"></i> ' + t('cli.ready') + '</span>'
           : '<span class="tool-status-text muted"><i data-lucide="circle-dashed" class="w-3.5 h-3.5"></i> ' + t('cli.notInstalled') + '</span>') +
         (isAvailable && !isDefault
-          ? '<button class="btn-sm btn-outline" onclick="setDefaultCliTool(\'' + tool + '\')"><i data-lucide="star" class="w-3 h-3"></i> ' + t('cli.setDefault') + '</button>'
+          ? '<button class="btn-sm btn-outline" onclick="event.stopPropagation(); setDefaultCliTool(\'' + tool + '\')"><i data-lucide="star" class="w-3 h-3"></i> ' + t('cli.setDefault') + '</button>'
           : '') +
       '</div>' +
     '</div>';
@@ -136,11 +404,13 @@ function renderToolsSection() {
   // Semantic Search item (only show if CodexLens is installed)
   var semanticHtml = '';
   if (codexLensStatus.ready) {
-    semanticHtml = '<div class="tool-item ' + (semanticStatus.available ? 'available' : 'unavailable') + '">' +
+    semanticHtml = '<div class="tool-item clickable ' + (semanticStatus.available ? 'available' : 'unavailable') + '" onclick="openSemanticSettingsModal()">' +
       '<div class="tool-item-left">' +
         '<span class="tool-status-dot ' + (semanticStatus.available ? 'status-available' : 'status-unavailable') + '"></span>' +
         '<div class="tool-item-info">' +
-          '<div class="tool-item-name">Semantic Search <span class="tool-type-badge ai">AI</span></div>' +
+          '<div class="tool-item-name">Semantic Search <span class="tool-type-badge ai">AI</span>' +
+            (llmEnhancementSettings.enabled ? '<span class="tool-type-badge llm">LLM</span>' : '') +
+            '<i data-lucide="settings" class="w-3 h-3 tool-config-icon"></i></div>' +
           '<div class="tool-item-desc">' + (semanticStatus.available ? 'AI-powered code understanding' : 'Natural language code search') + '</div>' +
         '</div>' +
       '</div>' +
@@ -148,7 +418,7 @@ function renderToolsSection() {
         (semanticStatus.available
           ? '<span class="tool-status-text success"><i data-lucide="sparkles" class="w-3.5 h-3.5"></i> ' + (semanticStatus.backend || 'Ready') + '</span>'
           : '<span class="tool-status-text muted"><i data-lucide="circle-dashed" class="w-3.5 h-3.5"></i> Not Installed</span>' +
-            '<button class="btn-sm btn-primary" onclick="openSemanticInstallWizard()"><i data-lucide="brain" class="w-3 h-3"></i> Install</button>') +
+            '<button class="btn-sm btn-primary" onclick="event.stopPropagation(); openSemanticInstallWizard()"><i data-lucide="brain" class="w-3 h-3"></i> Install</button>') +
       '</div>' +
     '</div>';
   }

ccw/src/templates/dashboard-js/views/prompt-history.js

@@ -44,7 +44,7 @@ async function loadPromptInsights() {
 
 async function loadPromptInsightsHistory() {
   try {
-    var response = await fetch('/api/memory/insights?limit=20');
+    var response = await fetch('/api/memory/insights?limit=20&path=' + encodeURIComponent(projectPath));
     if (!response.ok) throw new Error('Failed to load insights history');
     var data = await response.json();
     promptInsightsHistory = data.insights || [];
@@ -699,6 +699,9 @@ async function triggerCliInsightsAnalysis() {
       console.log('[PromptHistory] Insights parsed:', promptInsights);
     }
 
+    // Reload insights history to show the new analysis result
+    await loadPromptInsightsHistory();
+
     showRefreshToast(t('toast.completed') + ' (' + tool + ')', 'success');
   } catch (err) {
     console.error('CLI insights analysis failed:', err);

ccw/src/tools/cli-config-manager.ts

@@ -0,0 +1,272 @@
+/**
+ * CLI Configuration Manager
+ * Handles loading, saving, and managing CLI tool configurations
+ * Stores config in .workflow/cli-config.json
+ */
+import * as fs from 'fs';
+import * as path from 'path';
+
+// ========== Types ==========
+
+export interface CliToolConfig {
+  enabled: boolean;
+  primaryModel: string;      // For CLI endpoint calls (ccw cli exec)
+  secondaryModel: string;    // For internal calls (llm_enhancer, generate_module_docs)
+}
+
+export interface CliConfig {
+  version: number;
+  tools: Record<string, CliToolConfig>;
+}
+
+export type CliToolName = 'gemini' | 'qwen' | 'codex';
+
+// ========== Constants ==========
+
+export const PREDEFINED_MODELS: Record<CliToolName, string[]> = {
+  gemini: ['gemini-2.5-pro', 'gemini-2.5-flash', 'gemini-2.0-flash', 'gemini-1.5-pro', 'gemini-1.5-flash'],
+  qwen: ['coder-model', 'vision-model', 'qwen2.5-coder-32b'],
+  codex: ['gpt5-codex', 'gpt-4.1', 'o4-mini', 'o3']
+};
+
+export const DEFAULT_CONFIG: CliConfig = {
+  version: 1,
+  tools: {
+    gemini: {
+      enabled: true,
+      primaryModel: 'gemini-2.5-pro',
+      secondaryModel: 'gemini-2.5-flash'
+    },
+    qwen: {
+      enabled: true,
+      primaryModel: 'coder-model',
+      secondaryModel: 'coder-model'
+    },
+    codex: {
+      enabled: true,
+      primaryModel: 'gpt5-codex',
+      secondaryModel: 'gpt5-codex'
+    }
+  }
+};
+
+const CONFIG_DIR = '.workflow';
+const CONFIG_FILE = 'cli-config.json';
+
+// ========== Helper Functions ==========
+
+function getConfigPath(baseDir: string): string {
+  return path.join(baseDir, CONFIG_DIR, CONFIG_FILE);
+}
+
+function ensureConfigDir(baseDir: string): void {
+  const configDir = path.join(baseDir, CONFIG_DIR);
+  if (!fs.existsSync(configDir)) {
+    fs.mkdirSync(configDir, { recursive: true });
+  }
+}
+
+function isValidToolName(tool: string): tool is CliToolName {
+  return ['gemini', 'qwen', 'codex'].includes(tool);
+}
+
+function validateConfig(config: unknown): config is CliConfig {
+  if (!config || typeof config !== 'object') return false;
+  const c = config as Record<string, unknown>;
+
+  if (typeof c.version !== 'number') return false;
+  if (!c.tools || typeof c.tools !== 'object') return false;
+
+  const tools = c.tools as Record<string, unknown>;
+  for (const toolName of ['gemini', 'qwen', 'codex']) {
+    const tool = tools[toolName];
+    if (!tool || typeof tool !== 'object') return false;
+
+    const t = tool as Record<string, unknown>;
+    if (typeof t.enabled !== 'boolean') return false;
+    if (typeof t.primaryModel !== 'string') return false;
+    if (typeof t.secondaryModel !== 'string') return false;
+  }
+
+  return true;
+}
+
+function mergeWithDefaults(config: Partial<CliConfig>): CliConfig {
+  const result: CliConfig = {
+    version: config.version ?? DEFAULT_CONFIG.version,
+    tools: { ...DEFAULT_CONFIG.tools }
+  };
+
+  if (config.tools) {
+    for (const toolName of Object.keys(config.tools)) {
+      if (isValidToolName(toolName) && config.tools[toolName]) {
+        result.tools[toolName] = {
+          ...DEFAULT_CONFIG.tools[toolName],
+          ...config.tools[toolName]
+        };
+      }
+    }
+  }
+
+  return result;
+}
+
+// ========== Main Functions ==========
+
+/**
+ * Load CLI configuration from .workflow/cli-config.json
+ * Returns default config if file doesn't exist or is invalid
+ */
+export function loadCliConfig(baseDir: string): CliConfig {
+  const configPath = getConfigPath(baseDir);
+
+  try {
+    if (!fs.existsSync(configPath)) {
+      return { ...DEFAULT_CONFIG };
+    }
+
+    const content = fs.readFileSync(configPath, 'utf-8');
+    const parsed = JSON.parse(content);
+
+    if (validateConfig(parsed)) {
+      return mergeWithDefaults(parsed);
+    }
+
+    // Invalid config, return defaults
+    console.warn('[cli-config] Invalid config file, using defaults');
+    return { ...DEFAULT_CONFIG };
+  } catch (err) {
+    console.error('[cli-config] Error loading config:', err);
+    return { ...DEFAULT_CONFIG };
+  }
+}
+
+/**
+ * Save CLI configuration to .workflow/cli-config.json
+ */
+export function saveCliConfig(baseDir: string, config: CliConfig): void {
+  ensureConfigDir(baseDir);
+  const configPath = getConfigPath(baseDir);
+
+  try {
+    fs.writeFileSync(configPath, JSON.stringify(config, null, 2), 'utf-8');
+  } catch (err) {
+    console.error('[cli-config] Error saving config:', err);
+    throw new Error(`Failed to save CLI config: ${err}`);
+  }
+}
+
+/**
+ * Get configuration for a specific tool
+ */
+export function getToolConfig(baseDir: string, tool: string): CliToolConfig {
+  if (!isValidToolName(tool)) {
+    throw new Error(`Invalid tool name: ${tool}`);
+  }
+
+  const config = loadCliConfig(baseDir);
+  return config.tools[tool] || DEFAULT_CONFIG.tools[tool];
+}
+
+/**
+ * Update configuration for a specific tool
+ * Returns the updated tool config
+ */
+export function updateToolConfig(
+  baseDir: string,
+  tool: string,
+  updates: Partial<CliToolConfig>
+): CliToolConfig {
+  if (!isValidToolName(tool)) {
+    throw new Error(`Invalid tool name: ${tool}`);
+  }
+
+  const config = loadCliConfig(baseDir);
+  const currentToolConfig = config.tools[tool] || DEFAULT_CONFIG.tools[tool];
+
+  // Apply updates
+  const updatedToolConfig: CliToolConfig = {
+    enabled: updates.enabled !== undefined ? updates.enabled : currentToolConfig.enabled,
+    primaryModel: updates.primaryModel || currentToolConfig.primaryModel,
+    secondaryModel: updates.secondaryModel || currentToolConfig.secondaryModel
+  };
+
+  // Save updated config
+  config.tools[tool] = updatedToolConfig;
+  saveCliConfig(baseDir, config);
+
+  return updatedToolConfig;
+}
+
+/**
+ * Enable a CLI tool
+ */
+export function enableTool(baseDir: string, tool: string): CliToolConfig {
+  return updateToolConfig(baseDir, tool, { enabled: true });
+}
+
+/**
+ * Disable a CLI tool
+ */
+export function disableTool(baseDir: string, tool: string): CliToolConfig {
+  return updateToolConfig(baseDir, tool, { enabled: false });
+}
+
+/**
+ * Check if a tool is enabled
+ */
+export function isToolEnabled(baseDir: string, tool: string): boolean {
+  try {
+    const config = getToolConfig(baseDir, tool);
+    return config.enabled;
+  } catch {
+    return true; // Default to enabled if error
+  }
+}
+
+/**
+ * Get primary model for a tool
+ */
+export function getPrimaryModel(baseDir: string, tool: string): string {
+  try {
+    const config = getToolConfig(baseDir, tool);
+    return config.primaryModel;
+  } catch {
+    return isValidToolName(tool) ? DEFAULT_CONFIG.tools[tool].primaryModel : 'gemini-2.5-pro';
+  }
+}
+
+/**
+ * Get secondary model for a tool (used for internal calls)
+ */
+export function getSecondaryModel(baseDir: string, tool: string): string {
+  try {
+    const config = getToolConfig(baseDir, tool);
+    return config.secondaryModel;
+  } catch {
+    return isValidToolName(tool) ? DEFAULT_CONFIG.tools[tool].secondaryModel : 'gemini-2.5-flash';
+  }
+}
+
+/**
+ * Get all predefined models for a tool
+ */
+export function getPredefinedModels(tool: string): string[] {
+  if (!isValidToolName(tool)) {
+    return [];
+  }
+  return [...PREDEFINED_MODELS[tool]];
+}
+
+/**
+ * Get full config response for API (includes predefined models)
+ */
+export function getFullConfigResponse(baseDir: string): {
+  config: CliConfig;
+  predefinedModels: Record<string, string[]>;
+} {
+  return {
+    config: loadCliConfig(baseDir),
+    predefinedModels: { ...PREDEFINED_MODELS }
+  };
+}

ccw/src/tools/cli-executor.ts

@@ -22,6 +22,12 @@ import {
   getResumeModeDescription,
   type ResumeDecision
 } from './resume-strategy.js';
+import {
+  isToolEnabled as isToolEnabledFromConfig,
+  enableTool as enableToolFromConfig,
+  disableTool as disableToolFromConfig,
+  getPrimaryModel
+} from './cli-config-manager.js';
 
 // CLI History storage path
 const CLI_HISTORY_DIR = join(process.cwd(), '.workflow', '.cli-history');
@@ -720,12 +726,23 @@ async function executeCliTool(
     }
   }
 
+  // Determine effective model (use config's primaryModel if not explicitly provided)
+  let effectiveModel = model;
+  if (!effectiveModel) {
+    try {
+      effectiveModel = getPrimaryModel(workingDir, tool);
+    } catch {
+      // Config not available, use default (let the CLI tool use its own default)
+      effectiveModel = undefined;
+    }
+  }
+
   // Build command
   const { command, args, useStdin } = buildCommand({
     tool,
     prompt: finalPrompt,
     mode,
-    model,
+    model: effectiveModel,
     dir: cd,
     include: includeDirs,
     nativeResume: nativeResumeConfig
@@ -1203,6 +1220,19 @@ export function getConversationDetail(baseDir: string, conversationId: string):
   return loadConversation(historyDir, conversationId);
 }
 
+/**
+ * Get conversation detail with native session info
+ */
+export function getConversationDetailWithNativeInfo(baseDir: string, conversationId: string) {
+  try {
+    const store = getSqliteStoreSync(baseDir);
+    return store.getConversationWithNativeInfo(conversationId);
+  } catch {
+    // SQLite not initialized, return null
+    return null;
+  }
+}
+
 /**
  * Get execution detail by ID (legacy, returns ExecutionRecord for backward compatibility)
  */
@@ -1274,6 +1304,181 @@ export async function getCliToolsStatus(): Promise<Record<string, ToolAvailabili
   return results;
 }
 
+// CLI tool package mapping
+const CLI_TOOL_PACKAGES: Record<string, string> = {
+  gemini: '@google/gemini-cli',
+  qwen: '@qwen-code/qwen-code',
+  codex: '@openai/codex',
+  claude: '@anthropic-ai/claude-code'
+};
+
+// Disabled tools storage (in-memory fallback, main storage is in cli-config.json)
+const disabledTools = new Set<string>();
+
+// Default working directory for config operations
+let configBaseDir = process.cwd();
+
+/**
+ * Set the base directory for config operations
+ */
+export function setConfigBaseDir(dir: string): void {
+  configBaseDir = dir;
+}
+
+/**
+ * Install a CLI tool via npm
+ */
+export async function installCliTool(tool: string): Promise<{ success: boolean; error?: string }> {
+  const packageName = CLI_TOOL_PACKAGES[tool];
+  if (!packageName) {
+    return { success: false, error: `Unknown tool: ${tool}` };
+  }
+
+  return new Promise((resolve) => {
+    const child = spawn('npm', ['install', '-g', packageName], {
+      shell: true,
+      stdio: ['ignore', 'pipe', 'pipe']
+    });
+
+    let stderr = '';
+    child.stderr?.on('data', (data) => { stderr += data.toString(); });
+
+    child.on('close', (code) => {
+      // Clear cache to force re-check
+      toolAvailabilityCache.delete(tool);
+
+      if (code === 0) {
+        resolve({ success: true });
+      } else {
+        resolve({ success: false, error: stderr || `npm install failed with code ${code}` });
+      }
+    });
+
+    child.on('error', (err) => {
+      resolve({ success: false, error: err.message });
+    });
+
+    // Timeout after 2 minutes
+    setTimeout(() => {
+      child.kill();
+      resolve({ success: false, error: 'Installation timed out' });
+    }, 120000);
+  });
+}
+
+/**
+ * Uninstall a CLI tool via npm
+ */
+export async function uninstallCliTool(tool: string): Promise<{ success: boolean; error?: string }> {
+  const packageName = CLI_TOOL_PACKAGES[tool];
+  if (!packageName) {
+    return { success: false, error: `Unknown tool: ${tool}` };
+  }
+
+  return new Promise((resolve) => {
+    const child = spawn('npm', ['uninstall', '-g', packageName], {
+      shell: true,
+      stdio: ['ignore', 'pipe', 'pipe']
+    });
+
+    let stderr = '';
+    child.stderr?.on('data', (data) => { stderr += data.toString(); });
+
+    child.on('close', (code) => {
+      // Clear cache to force re-check
+      toolAvailabilityCache.delete(tool);
+
+      if (code === 0) {
+        resolve({ success: true });
+      } else {
+        resolve({ success: false, error: stderr || `npm uninstall failed with code ${code}` });
+      }
+    });
+
+    child.on('error', (err) => {
+      resolve({ success: false, error: err.message });
+    });
+
+    // Timeout after 1 minute
+    setTimeout(() => {
+      child.kill();
+      resolve({ success: false, error: 'Uninstallation timed out' });
+    }, 60000);
+  });
+}
+
+/**
+ * Enable a CLI tool (updates config file)
+ */
+export function enableCliTool(tool: string): { success: boolean } {
+  try {
+    enableToolFromConfig(configBaseDir, tool);
+    disabledTools.delete(tool); // Also update in-memory fallback
+    return { success: true };
+  } catch (err) {
+    console.error('[cli-executor] Error enabling tool:', err);
+    disabledTools.delete(tool); // Fallback to in-memory
+    return { success: true };
+  }
+}
+
+/**
+ * Disable a CLI tool (updates config file)
+ */
+export function disableCliTool(tool: string): { success: boolean } {
+  try {
+    disableToolFromConfig(configBaseDir, tool);
+    disabledTools.add(tool); // Also update in-memory fallback
+    return { success: true };
+  } catch (err) {
+    console.error('[cli-executor] Error disabling tool:', err);
+    disabledTools.add(tool); // Fallback to in-memory
+    return { success: true };
+  }
+}
+
+/**
+ * Check if a tool is enabled (reads from config file)
+ */
+export function isToolEnabled(tool: string): boolean {
+  try {
+    return isToolEnabledFromConfig(configBaseDir, tool);
+  } catch {
+    // Fallback to in-memory check
+    return !disabledTools.has(tool);
+  }
+}
+
+/**
+ * Get full status of all CLI tools including enabled state
+ */
+export async function getCliToolsFullStatus(): Promise<Record<string, {
+  available: boolean;
+  enabled: boolean;
+  path: string | null;
+  packageName: string;
+}>> {
+  const tools = Object.keys(CLI_TOOL_PACKAGES);
+  const results: Record<string, {
+    available: boolean;
+    enabled: boolean;
+    path: string | null;
+    packageName: string;
+  }> = {};
+
+  await Promise.all(tools.map(async (tool) => {
+    const availability = await checkToolAvailability(tool);
+    results[tool] = {
+      available: availability.available,
+      enabled: isToolEnabled(tool),
+      path: availability.path,
+      packageName: CLI_TOOL_PACKAGES[tool]
+    };
+  }));
+
+  return results;
+}
+
 // ========== Prompt Concatenation System ==========
 
 /**

ccw/src/tools/cli-history-store.ts

@@ -463,6 +463,26 @@ export class CliHistoryStore {
     };
   }
 
+  /**
+   * Get conversation with native session info
+   */
+  getConversationWithNativeInfo(id: string): (ConversationRecord & {
+    hasNativeSession: boolean;
+    nativeSessionId?: string;
+    nativeSessionPath?: string;
+  }) | null {
+    const conv = this.getConversation(id);
+    if (!conv) return null;
+
+    const mapping = this.getNativeSessionMapping(id);
+    return {
+      ...conv,
+      hasNativeSession: !!mapping,
+      nativeSessionId: mapping?.native_session_id,
+      nativeSessionPath: mapping?.native_session_path
+    };
+  }
+
   /**
    * Query execution history
    */

ccw/src/tools/generate-module-docs.ts

@@ -9,6 +9,7 @@ import { readdirSync, statSync, existsSync, readFileSync, mkdirSync, writeFileSy
 import { join, resolve, basename, extname, relative } from 'path';
 import { execSync } from 'child_process';
 import { tmpdir } from 'os';
+import { getSecondaryModel } from './cli-config-manager.js';
 
 // Directories to exclude
 const EXCLUDE_DIRS = [
@@ -266,8 +267,15 @@ export async function handler(params: Record<string, unknown>): Promise<ToolResu
       return { success: false, error: `Not a directory: ${targetPath}` };
     }
 
-    // Set model
-    const actualModel = model || DEFAULT_MODELS[tool] || DEFAULT_MODELS.gemini;
+    // Set model (use secondaryModel from config for internal calls)
+    let actualModel = model;
+    if (!actualModel) {
+      try {
+        actualModel = getSecondaryModel(process.cwd(), tool);
+      } catch {
+        actualModel = DEFAULT_MODELS[tool] || DEFAULT_MODELS.gemini;
+      }
+    }
 
     // Scan directory
     const { info: structureInfo, folderType } = scanDirectoryStructure(targetPath);

codex-lens/SEMANTIC_SEARCH_USAGE.md

@@ -0,0 +1,83 @@
+# Semantic Search Integration
+
+## Overview
+The ChainSearchEngine now supports semantic keyword search in addition to FTS5 full-text search.
+
+## Usage
+
+### Enable Semantic Search
+
+```python
+from pathlib import Path
+from codexlens.search.chain_search import ChainSearchEngine, SearchOptions
+from codexlens.storage.registry import RegistryStore
+from codexlens.storage.path_mapper import PathMapper
+
+# Initialize
+registry = RegistryStore()
+registry.initialize()
+mapper = PathMapper()
+engine = ChainSearchEngine(registry, mapper)
+
+# Create options with semantic search enabled
+options = SearchOptions(
+    include_semantic=True,  # Enable semantic keyword search
+    total_limit=50
+)
+
+# Execute search
+result = engine.search("authentication", Path("./src"), options)
+
+# Results include both FTS and semantic matches
+for r in result.results:
+    print(f"{r.path}: {r.score:.2f} - {r.excerpt}")
+```
+
+### How It Works
+
+1. **FTS Search**: Traditional full-text search using SQLite FTS5
+2. **Semantic Search**: Searches the `semantic_metadata.keywords` field
+3. **Result Merging**: Semantic results are added with 0.8x weight
+   - FTS results: BM25 score from SQLite
+   - Semantic results: Base score of 10.0 * 0.8 = 8.0
+4. **Deduplication**: `_merge_and_rank()` deduplicates by path, keeping highest score
+
+### Result Format
+
+- **FTS results**: Regular excerpt from matched content
+- **Semantic results**: `Keywords: keyword1, keyword2, keyword3, ...`
+
+### Prerequisites
+
+Files must have semantic metadata generated via:
+
+```bash
+codex-lens enhance . --tool gemini
+```
+
+This uses CCW CLI to generate summaries, keywords, and purpose descriptions.
+
+## Implementation Details
+
+### Changes Made
+
+1. **SearchOptions**: Added `include_semantic: bool = False` parameter
+2. **_search_parallel()**: Passes `include_semantic` to worker threads
+3. **_search_single_index()**: 
+   - Accepts `include_semantic` parameter
+   - Calls `DirIndexStore.search_semantic_keywords()` when enabled
+   - Converts semantic matches to `SearchResult` objects
+   - Applies 0.8x weight to semantic scores
+
+### Score Weighting
+
+```python
+# FTS result (from BM25)
+SearchResult(path="...", score=12.5, excerpt="...")
+
+# Semantic result (fixed weighted score)
+SearchResult(path="...", score=8.0, excerpt="Keywords: ...")
+```
+
+The 0.8x weight ensures semantic matches rank slightly lower than direct FTS matches
+but still appear in relevant results.

codex-lens/_debug_output.txt

@@ -0,0 +1,19 @@
+
+  Executing gemini (analysis mode)...
+
+Loaded cached credentials.
+[STARTUP] StartupProfiler.flush() called with 9 phases
+[STARTUP] Recording metric for phase: cli_startup duration: 1150.0729000000001
+[STARTUP] Recording metric for phase: load_settings duration: 4.219900000000052
+[STARTUP] Recording metric for phase: migrate_settings duration: 2.1841999999996915
+[STARTUP] Recording metric for phase: parse_arguments duration: 29.457800000000134
+[STARTUP] Recording metric for phase: load_cli_config duration: 68.73310000000038
+[STARTUP] Recording metric for phase: initialize_app duration: 1034.8242
+[STARTUP] Recording metric for phase: authenticate duration: 1029.4676
+[STARTUP] Recording metric for phase: discover_tools duration: 4.472099999999955
+[STARTUP] Recording metric for phase: initialize_mcp_clients duration: 0.6972999999998137
+Got it. I'm ready for your first command.
+
+  ✓ Completed in 16.1s
+  ID: 1765691168543-gemini
+  Continue: ccw cli exec "..." --resume 1765691168543-gemini

codex-lens/_test_output.txt

@@ -0,0 +1,22 @@
+=== STDOUT ===
+
+  Executing gemini (analysis mode)...
+
+Loaded cached credentials.
+[STARTUP] StartupProfiler.flush() called with 9 phases
+[STARTUP] Recording metric for phase: cli_startup duration: 1288.1085999999996
+[STARTUP] Recording metric for phase: load_settings duration: 3.2775000000001455
+[STARTUP] Recording metric for phase: migrate_settings duration: 2.3937999999998283
+[STARTUP] Recording metric for phase: parse_arguments duration: 23.193500000000313
+[STARTUP] Recording metric for phase: load_cli_config duration: 83.82570000000032
+[STARTUP] Recording metric for phase: initialize_app duration: 1109.2393000000002
+[STARTUP] Recording metric for phase: authenticate duration: 1096.3698000000004
+[STARTUP] Recording metric for phase: discover_tools duration: 8.271999999999935
+[STARTUP] Recording metric for phase: initialize_mcp_clients duration: 0.9225999999998749
+Setup complete. I am ready for your first command.
+
+  ✓ Completed in 19.6s
+  ID: 1765690404300-gemini
+  Continue: ccw cli exec "..." --resume 1765690404300-gemini
+
+=== STDERR ===

codex-lens/_test_prompt.txt

@@ -0,0 +1,25 @@
+PURPOSE: Generate semantic summaries and search keywords for code files
+TASK:
+- For each code block, generate a concise summary (1-2 sentences)
+- Extract 5-10 relevant search keywords
+- Identify the functional purpose/category
+MODE: analysis
+EXPECTED: JSON format output
+
+=== CODE BLOCKS ===
+[FILE: auth.py]
+```python
+def auth(): pass
+```
+
+=== OUTPUT FORMAT ===
+Return ONLY valid JSON (no markdown, no explanation):
+{
+  "files": {
+    "<file_path>": {
+      "summary": "Brief description of what this code does",
+      "keywords": ["keyword1", "keyword2", ...],
+      "purpose": "category like: auth, api, util, ui, data, config, test"
+    }
+  }
+}

codex-lens/_test_result.txt

@@ -0,0 +1,19 @@
+
+  Executing gemini (analysis mode)...
+
+Loaded cached credentials.
+[STARTUP] StartupProfiler.flush() called with 9 phases
+[STARTUP] Recording metric for phase: cli_startup duration: 1197.5227999999997
+[STARTUP] Recording metric for phase: load_settings duration: 2.119999999999891
+[STARTUP] Recording metric for phase: migrate_settings duration: 1.401600000000144
+[STARTUP] Recording metric for phase: parse_arguments duration: 18.296000000000276
+[STARTUP] Recording metric for phase: load_cli_config duration: 56.0604000000003
+[STARTUP] Recording metric for phase: initialize_app duration: 1109.9696999999996
+[STARTUP] Recording metric for phase: authenticate duration: 1104.0013
+[STARTUP] Recording metric for phase: discover_tools duration: 3.9744999999993524
+[STARTUP] Recording metric for phase: initialize_mcp_clients duration: 0.8747000000003027
+Setup complete. I am ready for your first command.
+
+  ✓ Completed in 16.0s
+  ID: 1765690668720-gemini
+  Continue: ccw cli exec "..." --resume 1765690668720-gemini

codex-lens/src/codexlens/cli/commands.py

@@ -1098,3 +1098,132 @@ def clean(
         else:
             console.print(f"[red]Clean failed (unexpected):[/red] {exc}")
             raise typer.Exit(code=1)
+
+
+@app.command("semantic-list")
+def semantic_list(
+    path: Path = typer.Option(Path("."), "--path", "-p", help="Project path to list metadata from."),
+    offset: int = typer.Option(0, "--offset", "-o", min=0, help="Number of records to skip."),
+    limit: int = typer.Option(50, "--limit", "-n", min=1, max=100, help="Maximum records to return."),
+    tool_filter: Optional[str] = typer.Option(None, "--tool", "-t", help="Filter by LLM tool (gemini/qwen)."),
+    json_mode: bool = typer.Option(False, "--json", help="Output JSON response."),
+    verbose: bool = typer.Option(False, "--verbose", "-v", help="Enable debug logging."),
+) -> None:
+    """List semantic metadata entries for indexed files.
+
+    Shows files that have LLM-generated summaries and keywords.
+    Results are aggregated from all index databases in the project.
+    """
+    _configure_logging(verbose)
+    base_path = path.expanduser().resolve()
+
+    registry: Optional[RegistryStore] = None
+    try:
+        registry = RegistryStore()
+        registry.initialize()
+        mapper = PathMapper()
+
+        project_info = registry.find_project(base_path)
+        if not project_info:
+            raise CodexLensError(f"No index found for: {base_path}. Run 'codex-lens init' first.")
+
+        index_dir = mapper.source_to_index_dir(base_path)
+        if not index_dir.exists():
+            raise CodexLensError(f"Index directory not found: {index_dir}")
+
+        all_results: list = []
+        total_count = 0
+
+        index_files = sorted(index_dir.rglob("_index.db"))
+
+        for db_path in index_files:
+            try:
+                store = DirIndexStore(db_path)
+                store.initialize()
+
+                results, count = store.list_semantic_metadata(
+                    offset=0,
+                    limit=1000,
+                    llm_tool=tool_filter,
+                )
+
+                source_dir = mapper.index_to_source(db_path.parent)
+                for r in results:
+                    r["source_dir"] = str(source_dir)
+
+                all_results.extend(results)
+                total_count += count
+
+                store.close()
+            except Exception as e:
+                if verbose:
+                    console.print(f"[yellow]Warning: Error reading {db_path}: {e}[/yellow]")
+
+        all_results.sort(key=lambda x: x["generated_at"], reverse=True)
+        paginated = all_results[offset : offset + limit]
+
+        result = {
+            "path": str(base_path),
+            "total": total_count,
+            "offset": offset,
+            "limit": limit,
+            "count": len(paginated),
+            "entries": paginated,
+        }
+
+        if json_mode:
+            print_json(success=True, result=result)
+        else:
+            if not paginated:
+                console.print("[yellow]No semantic metadata found.[/yellow]")
+                console.print("Run 'codex-lens enhance' to generate metadata for indexed files.")
+            else:
+                table = Table(title=f"Semantic Metadata ({total_count} total)")
+                table.add_column("File", style="cyan", max_width=40)
+                table.add_column("Language", style="dim")
+                table.add_column("Purpose", max_width=30)
+                table.add_column("Keywords", max_width=25)
+                table.add_column("Tool")
+
+                for entry in paginated:
+                    keywords_str = ", ".join(entry["keywords"][:3])
+                    if len(entry["keywords"]) > 3:
+                        keywords_str += f" (+{len(entry['keywords']) - 3})"
+
+                    table.add_row(
+                        entry["file_name"],
+                        entry["language"] or "-",
+                        (entry["purpose"] or "-")[:30],
+                        keywords_str or "-",
+                        entry["llm_tool"] or "-",
+                    )
+
+                console.print(table)
+
+                if total_count > len(paginated):
+                    console.print(
+                        f"[dim]Showing {offset + 1}-{offset + len(paginated)} of {total_count}. "
+                        "Use --offset and --limit for pagination.[/dim]"
+                    )
+
+    except StorageError as exc:
+        if json_mode:
+            print_json(success=False, error=f"Storage error: {exc}")
+        else:
+            console.print(f"[red]Semantic-list failed (storage):[/red] {exc}")
+            raise typer.Exit(code=1)
+    except CodexLensError as exc:
+        if json_mode:
+            print_json(success=False, error=str(exc))
+        else:
+            console.print(f"[red]Semantic-list failed:[/red] {exc}")
+            raise typer.Exit(code=1)
+    except Exception as exc:
+        if json_mode:
+            print_json(success=False, error=f"Unexpected error: {exc}")
+        else:
+            console.print(f"[red]Semantic-list failed (unexpected):[/red] {exc}")
+            raise typer.Exit(code=1)
+    finally:
+        if registry is not None:
+            registry.close()

codex-lens/src/codexlens/config.py

@@ -78,6 +78,11 @@ class Config:
         }
     )
 
+    llm_enabled: bool = False
+    llm_tool: str = "gemini"
+    llm_timeout_ms: int = 300000
+    llm_batch_size: int = 5
+
     def __post_init__(self) -> None:
         try:
             self.data_dir = self.data_dir.expanduser().resolve()

codex-lens/src/codexlens/search/chain_search.py

@@ -30,6 +30,7 @@ class SearchOptions:
         total_limit: Total result limit across all directories
         include_symbols: Whether to include symbol search results
         files_only: Return only file paths without excerpts
+        include_semantic: Whether to include semantic keyword search results
     """
     depth: int = -1
     max_workers: int = 8
@@ -37,6 +38,7 @@ class SearchOptions:
     total_limit: int = 100
     include_symbols: bool = False
     files_only: bool = False
+    include_semantic: bool = False
 
 
 @dataclass
@@ -378,7 +380,8 @@ class ChainSearchEngine:
                 idx_path,
                 query,
                 options.limit_per_dir,
-                options.files_only
+                options.files_only,
+                options.include_semantic
             ): idx_path
             for idx_path in index_paths
         }
@@ -400,7 +403,8 @@ class ChainSearchEngine:
     def _search_single_index(self, index_path: Path,
                               query: str,
                               limit: int,
-                              files_only: bool = False) -> List[SearchResult]:
+                              files_only: bool = False,
+                              include_semantic: bool = False) -> List[SearchResult]:
         """Search a single index database.
 
         Handles exceptions gracefully, returning empty list on failure.
@@ -410,18 +414,40 @@ class ChainSearchEngine:
             query: FTS5 query string
             limit: Maximum results from this index
             files_only: If True, skip snippet generation for faster search
+            include_semantic: If True, also search semantic keywords and merge results
 
         Returns:
             List of SearchResult objects (empty on error)
         """
         try:
             with DirIndexStore(index_path) as store:
+                # Get FTS results
                 if files_only:
                     # Fast path: return paths only without snippets
                     paths = store.search_files_only(query, limit=limit)
-                    return [SearchResult(path=p, score=0.0, excerpt="") for p in paths]
+                    fts_results = [SearchResult(path=p, score=0.0, excerpt="") for p in paths]
                 else:
-                    return store.search_fts(query, limit=limit)
+                    fts_results = store.search_fts(query, limit=limit)
+                
+                # Optionally add semantic keyword results
+                if include_semantic:
+                    try:
+                        semantic_matches = store.search_semantic_keywords(query)
+                        # Convert semantic matches to SearchResult with 0.8x weight
+                        for file_entry, keywords in semantic_matches:
+                            # Create excerpt from keywords
+                            excerpt = f"Keywords: {', '.join(keywords[:5])}"
+                            # Use a base score of 10.0 for semantic matches, weighted by 0.8
+                            semantic_result = SearchResult(
+                                path=str(file_entry.full_path),
+                                score=10.0 * 0.8,
+                                excerpt=excerpt
+                            )
+                            fts_results.append(semantic_result)
+                    except Exception as sem_exc:
+                        self.logger.debug(f"Semantic search error in {index_path}: {sem_exc}")
+                
+                return fts_results
         except Exception as exc:
             self.logger.debug(f"Search error in {index_path}: {exc}")
             return []

codex-lens/src/codexlens/semantic/__init__.py

@@ -32,4 +32,38 @@ def check_semantic_available() -> tuple[bool, str | None]:
     """Check if semantic search dependencies are available."""
     return SEMANTIC_AVAILABLE, _import_error
 
-__all__ = ["SEMANTIC_AVAILABLE", "SEMANTIC_BACKEND", "check_semantic_available"]
+# Export LLM enhancement classes
+try:
+    from .llm_enhancer import (
+        LLMEnhancer,
+        LLMConfig,
+        SemanticMetadata,
+        FileData,
+        EnhancedSemanticIndexer,
+        create_enhancer,
+        create_enhanced_indexer,
+    )
+    LLM_AVAILABLE = True
+except ImportError:
+    LLM_AVAILABLE = False
+    LLMEnhancer = None  # type: ignore
+    LLMConfig = None  # type: ignore
+    SemanticMetadata = None  # type: ignore
+    FileData = None  # type: ignore
+    EnhancedSemanticIndexer = None  # type: ignore
+    create_enhancer = None  # type: ignore
+    create_enhanced_indexer = None  # type: ignore
+
+__all__ = [
+    "SEMANTIC_AVAILABLE",
+    "SEMANTIC_BACKEND",
+    "check_semantic_available",
+    "LLM_AVAILABLE",
+    "LLMEnhancer",
+    "LLMConfig",
+    "SemanticMetadata",
+    "FileData",
+    "EnhancedSemanticIndexer",
+    "create_enhancer",
+    "create_enhanced_indexer",
+]

codex-lens/src/codexlens/semantic/llm_enhancer.py

@@ -0,0 +1,667 @@
+"""LLM-based semantic enhancement using CCW CLI.
+
+This module provides LLM-generated descriptions that are then embedded
+by fastembed for improved semantic search. The flow is:
+
+    Code → LLM Summary → fastembed embedding → VectorStore → semantic search
+
+LLM-generated summaries match natural language queries better than raw code.
+"""
+
+from __future__ import annotations
+
+import json
+import logging
+import os
+import subprocess
+import shutil
+from dataclasses import dataclass, field
+from pathlib import Path
+from typing import Any, Dict, List, Optional, TYPE_CHECKING
+
+from codexlens.entities import SemanticChunk, Symbol
+
+if TYPE_CHECKING:
+    from .embedder import Embedder
+    from .vector_store import VectorStore
+
+
+logger = logging.getLogger(__name__)
+
+
+@dataclass
+class SemanticMetadata:
+    """LLM-generated semantic metadata for a file or symbol."""
+
+    summary: str
+    keywords: List[str]
+    purpose: str
+    file_path: Optional[str] = None
+    symbol_name: Optional[str] = None
+    llm_tool: Optional[str] = None
+
+
+@dataclass
+class FileData:
+    """File data for LLM processing."""
+
+    path: str
+    content: str
+    language: str
+    symbols: List[Symbol] = field(default_factory=list)
+
+
+@dataclass
+class LLMConfig:
+    """Configuration for LLM enhancement.
+
+    Tool selection can be overridden via environment variables:
+    - CCW_CLI_SECONDARY_TOOL: Primary tool for LLM calls (default: gemini)
+    - CCW_CLI_FALLBACK_TOOL: Fallback tool if primary fails (default: qwen)
+    """
+
+    tool: str = field(default_factory=lambda: os.environ.get("CCW_CLI_SECONDARY_TOOL", "gemini"))
+    fallback_tool: str = field(default_factory=lambda: os.environ.get("CCW_CLI_FALLBACK_TOOL", "qwen"))
+    timeout_ms: int = 300000
+    batch_size: int = 5
+    max_content_chars: int = 8000  # Max chars per file in batch prompt
+    enabled: bool = True
+
+
+class LLMEnhancer:
+    """LLM-based semantic enhancement using CCW CLI.
+
+    Generates code summaries and search keywords by calling
+    external LLM tools (gemini, qwen) via CCW CLI subprocess.
+    """
+
+    PROMPT_TEMPLATE = '''PURPOSE: Generate semantic summaries and search keywords for code files
+TASK:
+- For each code block, generate a concise summary (1-2 sentences)
+- Extract 5-10 relevant search keywords
+- Identify the functional purpose/category
+MODE: analysis
+EXPECTED: JSON format output
+
+=== CODE BLOCKS ===
+{code_blocks}
+
+=== OUTPUT FORMAT ===
+Return ONLY valid JSON (no markdown, no explanation):
+{{
+  "files": {{
+    "<file_path>": {{
+      "summary": "Brief description of what this code does",
+      "keywords": ["keyword1", "keyword2", ...],
+      "purpose": "category like: auth, api, util, ui, data, config, test"
+    }}
+  }}
+}}'''
+
+    def __init__(self, config: LLMConfig | None = None) -> None:
+        """Initialize LLM enhancer.
+
+        Args:
+            config: LLM configuration, uses defaults if None
+        """
+        self.config = config or LLMConfig()
+        self._ccw_available: Optional[bool] = None
+
+    def check_available(self) -> bool:
+        """Check if CCW CLI tool is available."""
+        if self._ccw_available is not None:
+            return self._ccw_available
+
+        self._ccw_available = shutil.which("ccw") is not None
+        if not self._ccw_available:
+            logger.warning("CCW CLI not found in PATH, LLM enhancement disabled")
+        return self._ccw_available
+
+    def enhance_files(
+        self,
+        files: List[FileData],
+        working_dir: Optional[Path] = None,
+    ) -> Dict[str, SemanticMetadata]:
+        """Enhance multiple files with LLM-generated semantic metadata.
+
+        Processes files in batches to manage token limits and API costs.
+
+        Args:
+            files: List of file data to process
+            working_dir: Optional working directory for CCW CLI
+
+        Returns:
+            Dict mapping file paths to SemanticMetadata
+        """
+        if not self.config.enabled:
+            logger.debug("LLM enhancement disabled by config")
+            return {}
+
+        if not self.check_available():
+            return {}
+
+        if not files:
+            return {}
+
+        results: Dict[str, SemanticMetadata] = {}
+        batch_size = self.config.batch_size
+
+        for i in range(0, len(files), batch_size):
+            batch = files[i:i + batch_size]
+            try:
+                batch_results = self._process_batch(batch, working_dir)
+                results.update(batch_results)
+                logger.debug(
+                    "Processed batch %d/%d: %d files enhanced",
+                    i // batch_size + 1,
+                    (len(files) + batch_size - 1) // batch_size,
+                    len(batch_results),
+                )
+            except Exception as e:
+                logger.warning(
+                    "Batch %d failed, continuing: %s",
+                    i // batch_size + 1,
+                    e,
+                )
+                continue
+
+        return results
+
+    def enhance_file(
+        self,
+        path: str,
+        content: str,
+        language: str,
+        working_dir: Optional[Path] = None,
+    ) -> SemanticMetadata:
+        """Enhance a single file with LLM-generated semantic metadata.
+
+        Convenience method that wraps enhance_files for single file processing.
+
+        Args:
+            path: File path
+            content: File content
+            language: Programming language
+            working_dir: Optional working directory for CCW CLI
+
+        Returns:
+            SemanticMetadata for the file
+
+        Raises:
+            ValueError: If enhancement fails
+        """
+        file_data = FileData(path=path, content=content, language=language)
+        results = self.enhance_files([file_data], working_dir)
+
+        if path not in results:
+            # Return default metadata if enhancement failed
+            return SemanticMetadata(
+                summary=f"Code file written in {language}",
+                keywords=[language, "code"],
+                purpose="unknown",
+                file_path=path,
+                llm_tool=self.config.tool,
+            )
+
+        return results[path]
+
+
+    def _process_batch(
+        self,
+        files: List[FileData],
+        working_dir: Optional[Path] = None,
+    ) -> Dict[str, SemanticMetadata]:
+        """Process a single batch of files."""
+        prompt = self._build_batch_prompt(files)
+
+        # Try primary tool first
+        result = self._invoke_ccw_cli(
+            prompt,
+            tool=self.config.tool,
+            working_dir=working_dir,
+        )
+
+        # Fallback to secondary tool if primary fails
+        if not result["success"] and self.config.fallback_tool:
+            logger.debug(
+                "Primary tool %s failed, trying fallback %s",
+                self.config.tool,
+                self.config.fallback_tool,
+            )
+            result = self._invoke_ccw_cli(
+                prompt,
+                tool=self.config.fallback_tool,
+                working_dir=working_dir,
+            )
+
+        if not result["success"]:
+            logger.warning("LLM call failed: %s", result.get("stderr", "unknown error"))
+            return {}
+
+        return self._parse_response(result["stdout"], self.config.tool)
+
+    def _build_batch_prompt(self, files: List[FileData]) -> str:
+        """Build prompt for batch processing."""
+        code_blocks_parts: List[str] = []
+
+        for file_data in files:
+            # Truncate content if too long
+            content = file_data.content
+            if len(content) > self.config.max_content_chars:
+                content = content[:self.config.max_content_chars] + "\n... [truncated]"
+
+            # Format code block
+            lang_hint = file_data.language or "text"
+            code_block = f'''[FILE: {file_data.path}]
+```{lang_hint}
+{content}
+```'''
+            code_blocks_parts.append(code_block)
+
+        code_blocks = "\n\n".join(code_blocks_parts)
+        return self.PROMPT_TEMPLATE.format(code_blocks=code_blocks)
+
+    def _invoke_ccw_cli(
+        self,
+        prompt: str,
+        tool: str = "gemini",
+        working_dir: Optional[Path] = None,
+    ) -> Dict[str, Any]:
+        """Invoke CCW CLI tool via subprocess.
+
+        Args:
+            prompt: The prompt to send to LLM
+            tool: Tool name (gemini, qwen, codex)
+            working_dir: Optional working directory
+
+        Returns:
+            Dict with success, stdout, stderr, exit_code
+        """
+        import sys
+        import os
+
+        timeout_seconds = (self.config.timeout_ms / 1000) + 30
+
+        # Build base arguments
+        base_args = [
+            "cli", "exec",
+            prompt,  # Direct string argument
+            "--tool", tool,
+            "--mode", "analysis",
+            "--timeout", str(self.config.timeout_ms),
+        ]
+        if working_dir:
+            base_args.extend(["--cd", str(working_dir)])
+
+        try:
+            if sys.platform == "win32":
+                # On Windows, ccw is a .CMD wrapper that requires shell
+                # Instead, directly invoke node with the ccw.js script
+                ccw_path = shutil.which("ccw")
+                if ccw_path and ccw_path.lower().endswith(".cmd"):
+                    # Find the ccw.js script location
+                    npm_dir = Path(ccw_path).parent
+                    ccw_js = npm_dir / "node_modules" / "ccw" / "bin" / "ccw.js"
+                    if ccw_js.exists():
+                        cmd = ["node", str(ccw_js)] + base_args
+                    else:
+                        # Fallback to shell execution
+                        cmd_str = "ccw " + " ".join(f'"{a}"' if " " in a else a for a in base_args)
+                        result = subprocess.run(
+                            cmd_str, shell=True, capture_output=True, text=True,
+                            timeout=timeout_seconds, cwd=working_dir,
+                            encoding="utf-8", errors="replace",
+                        )
+                        return {
+                            "success": result.returncode == 0,
+                            "stdout": result.stdout,
+                            "stderr": result.stderr,
+                            "exit_code": result.returncode,
+                        }
+                else:
+                    cmd = ["ccw"] + base_args
+            else:
+                cmd = ["ccw"] + base_args
+
+            result = subprocess.run(
+                cmd,
+                capture_output=True,
+                text=True,
+                timeout=timeout_seconds,
+                cwd=working_dir,
+                encoding="utf-8",
+                errors="replace",
+            )
+
+            return {
+                "success": result.returncode == 0,
+                "stdout": result.stdout,
+                "stderr": result.stderr,
+                "exit_code": result.returncode,
+            }
+
+        except subprocess.TimeoutExpired:
+            logger.warning("CCW CLI timeout after %ds", self.config.timeout_ms / 1000)
+            return {
+                "success": False,
+                "stdout": "",
+                "stderr": "timeout",
+                "exit_code": -1,
+            }
+        except FileNotFoundError:
+            logger.warning("CCW CLI not found - ensure 'ccw' is in PATH")
+            return {
+                "success": False,
+                "stdout": "",
+                "stderr": "ccw command not found",
+                "exit_code": -1,
+            }
+        except Exception as e:
+            logger.warning("CCW CLI invocation failed: %s", e)
+            return {
+                "success": False,
+                "stdout": "",
+                "stderr": str(e),
+                "exit_code": -1,
+            }
+
+    def _parse_response(
+        self,
+        stdout: str,
+        tool: str,
+    ) -> Dict[str, SemanticMetadata]:
+        """Parse LLM response into SemanticMetadata objects.
+
+        Args:
+            stdout: Raw stdout from CCW CLI
+            tool: Tool name used for generation
+
+        Returns:
+            Dict mapping file paths to SemanticMetadata
+        """
+        results: Dict[str, SemanticMetadata] = {}
+
+        # Extract JSON from response (may be wrapped in markdown or other text)
+        json_str = self._extract_json(stdout)
+        if not json_str:
+            logger.warning("No JSON found in LLM response")
+            return results
+
+        try:
+            data = json.loads(json_str)
+        except json.JSONDecodeError as e:
+            logger.warning("Failed to parse LLM response JSON: %s", e)
+            return results
+
+        # Handle expected format: {"files": {"path": {...}}}
+        files_data = data.get("files", data)
+        if not isinstance(files_data, dict):
+            logger.warning("Unexpected response format: expected dict")
+            return results
+
+        for file_path, metadata in files_data.items():
+            if not isinstance(metadata, dict):
+                continue
+
+            try:
+                results[file_path] = SemanticMetadata(
+                    summary=metadata.get("summary", ""),
+                    keywords=metadata.get("keywords", []),
+                    purpose=metadata.get("purpose", ""),
+                    file_path=file_path,
+                    llm_tool=tool,
+                )
+            except Exception as e:
+                logger.debug("Failed to parse metadata for %s: %s", file_path, e)
+                continue
+
+        return results
+
+    def _extract_json(self, text: str) -> Optional[str]:
+        """Extract JSON object from text that may contain markdown or other content."""
+        # Try to find JSON object boundaries
+        text = text.strip()
+
+        # Remove markdown code blocks if present
+        if text.startswith("```"):
+            lines = text.split("\n")
+            # Remove first line (```json or ```)
+            lines = lines[1:]
+            # Find closing ```
+            for i, line in enumerate(lines):
+                if line.strip() == "```":
+                    lines = lines[:i]
+                    break
+            text = "\n".join(lines)
+
+        # Find JSON object
+        start = text.find("{")
+        if start == -1:
+            return None
+
+        # Find matching closing brace
+        depth = 0
+        end = start
+        for i, char in enumerate(text[start:], start):
+            if char == "{":
+                depth += 1
+            elif char == "}":
+                depth -= 1
+                if depth == 0:
+                    end = i + 1
+                    break
+
+        if depth != 0:
+            return None
+
+        return text[start:end]
+
+
+def create_enhancer(
+    tool: str = "gemini",
+    timeout_ms: int = 300000,
+    batch_size: int = 5,
+    enabled: bool = True,
+) -> LLMEnhancer:
+    """Factory function to create LLM enhancer with custom config."""
+    config = LLMConfig(
+        tool=tool,
+        timeout_ms=timeout_ms,
+        batch_size=batch_size,
+        enabled=enabled,
+    )
+    return LLMEnhancer(config)
+
+
+class EnhancedSemanticIndexer:
+    """Integrates LLM enhancement with fastembed vector search.
+
+    Flow:
+        1. Code files → LLM generates summaries/keywords
+        2. Summaries → fastembed generates embeddings
+        3. Embeddings → VectorStore for similarity search
+
+    This produces better semantic search because:
+    - LLM summaries are natural language descriptions
+    - Natural language queries match summaries better than raw code
+    - Keywords expand search coverage
+    """
+
+    def __init__(
+        self,
+        enhancer: LLMEnhancer,
+        embedder: "Embedder",
+        vector_store: "VectorStore",
+    ) -> None:
+        """Initialize enhanced semantic indexer.
+
+        Args:
+            enhancer: LLM enhancer for generating summaries
+            embedder: Fastembed embedder for vector generation
+            vector_store: Vector storage for similarity search
+        """
+        self.enhancer = enhancer
+        self.embedder = embedder
+        self.vector_store = vector_store
+
+    def index_files(
+        self,
+        files: List[FileData],
+        working_dir: Optional[Path] = None,
+    ) -> int:
+        """Index files with LLM-enhanced semantic search.
+
+        Args:
+            files: List of file data to index
+            working_dir: Optional working directory for LLM calls
+
+        Returns:
+            Number of files successfully indexed
+        """
+        if not files:
+            return 0
+
+        # Step 1: Generate LLM summaries
+        logger.info("Generating LLM summaries for %d files...", len(files))
+        metadata_map = self.enhancer.enhance_files(files, working_dir)
+
+        if not metadata_map:
+            logger.warning("No LLM metadata generated, falling back to raw code")
+            return self._index_raw_code(files)
+
+        # Step 2: Create semantic chunks from LLM summaries
+        chunks_to_embed: List[SemanticChunk] = []
+        file_paths: List[str] = []
+
+        for file_data in files:
+            metadata = metadata_map.get(file_data.path)
+            if metadata:
+                # Use LLM-generated summary + keywords for embedding
+                embeddable_text = self._create_embeddable_text(metadata, file_data)
+                chunk = SemanticChunk(
+                    content=embeddable_text,
+                    embedding=None,
+                    metadata={
+                        "file": file_data.path,
+                        "language": file_data.language,
+                        "summary": metadata.summary,
+                        "keywords": metadata.keywords,
+                        "purpose": metadata.purpose,
+                        "llm_tool": metadata.llm_tool,
+                        "strategy": "llm_enhanced",
+                    },
+                )
+            else:
+                # Fallback: use truncated raw code
+                chunk = SemanticChunk(
+                    content=file_data.content[:2000],
+                    embedding=None,
+                    metadata={
+                        "file": file_data.path,
+                        "language": file_data.language,
+                        "strategy": "raw_code",
+                    },
+                )
+
+            chunks_to_embed.append(chunk)
+            file_paths.append(file_data.path)
+
+        # Step 3: Generate embeddings
+        logger.info("Generating embeddings for %d chunks...", len(chunks_to_embed))
+        texts = [chunk.content for chunk in chunks_to_embed]
+        embeddings = self.embedder.embed(texts)
+
+        # Step 4: Store in vector store
+        indexed_count = 0
+        for chunk, embedding, file_path in zip(chunks_to_embed, embeddings, file_paths):
+            chunk.embedding = embedding
+            try:
+                self.vector_store.add_chunk(chunk, file_path)
+                indexed_count += 1
+            except Exception as e:
+                logger.debug("Failed to store chunk for %s: %s", file_path, e)
+
+        logger.info("Successfully indexed %d/%d files", indexed_count, len(files))
+        return indexed_count
+
+    def _create_embeddable_text(
+        self,
+        metadata: SemanticMetadata,
+        file_data: FileData,
+    ) -> str:
+        """Create text optimized for embedding from LLM metadata.
+
+        Combines summary, keywords, and purpose into a single string
+        that will produce good semantic matches for natural language queries.
+        """
+        parts = []
+
+        # Summary is the primary content
+        if metadata.summary:
+            parts.append(metadata.summary)
+
+        # Purpose adds categorical context
+        if metadata.purpose:
+            parts.append(f"Category: {metadata.purpose}")
+
+        # Keywords expand search coverage
+        if metadata.keywords:
+            parts.append(f"Keywords: {', '.join(metadata.keywords)}")
+
+        # Add file name for context
+        parts.append(f"File: {Path(file_data.path).name}")
+
+        return "\n".join(parts)
+
+    def _index_raw_code(self, files: List[FileData]) -> int:
+        """Fallback: index raw code without LLM enhancement."""
+        indexed_count = 0
+
+        for file_data in files:
+            # Truncate to reasonable size
+            content = file_data.content[:2000]
+
+            chunk = SemanticChunk(
+                content=content,
+                embedding=None,
+                metadata={
+                    "file": file_data.path,
+                    "language": file_data.language,
+                    "strategy": "raw_code",
+                },
+            )
+
+            try:
+                embedding = self.embedder.embed_single(content)
+                chunk.embedding = embedding
+                self.vector_store.add_chunk(chunk, file_data.path)
+                indexed_count += 1
+            except Exception as e:
+                logger.debug("Failed to index %s: %s", file_data.path, e)
+
+        return indexed_count
+
+
+def create_enhanced_indexer(
+    vector_store_path: Path,
+    llm_tool: str = "gemini",
+    llm_enabled: bool = True,
+) -> EnhancedSemanticIndexer:
+    """Factory function to create an enhanced semantic indexer.
+
+    Args:
+        vector_store_path: Path for the vector store database
+        llm_tool: LLM tool to use (gemini, qwen)
+        llm_enabled: Whether to enable LLM enhancement
+
+    Returns:
+        Configured EnhancedSemanticIndexer instance
+    """
+    from .embedder import Embedder
+    from .vector_store import VectorStore
+
+    enhancer = create_enhancer(tool=llm_tool, enabled=llm_enabled)
+    embedder = Embedder()
+    vector_store = VectorStore(vector_store_path)
+
+    return EnhancedSemanticIndexer(enhancer, embedder, vector_store)

codex-lens/src/codexlens/storage/dir_index.py

@@ -347,6 +347,222 @@ class DirIndexStore:
             row = conn.execute("SELECT COUNT(*) AS c FROM files").fetchone()
             return int(row["c"]) if row else 0
 
+    # === Semantic Metadata ===
+
+    def add_semantic_metadata(
+        self,
+        file_id: int,
+        summary: str,
+        keywords: List[str],
+        purpose: str,
+        llm_tool: str
+    ) -> None:
+        """Add or update semantic metadata for a file.
+
+        Args:
+            file_id: File ID from files table
+            summary: LLM-generated summary
+            keywords: List of keywords
+            purpose: Purpose/role of the file
+            llm_tool: Tool used to generate metadata (gemini/qwen)
+        """
+        with self._lock:
+            conn = self._get_connection()
+
+            import json
+            import time
+
+            keywords_json = json.dumps(keywords)
+            generated_at = time.time()
+
+            conn.execute(
+                """
+                INSERT INTO semantic_metadata(file_id, summary, keywords, purpose, llm_tool, generated_at)
+                VALUES(?, ?, ?, ?, ?, ?)
+                ON CONFLICT(file_id) DO UPDATE SET
+                    summary=excluded.summary,
+                    keywords=excluded.keywords,
+                    purpose=excluded.purpose,
+                    llm_tool=excluded.llm_tool,
+                    generated_at=excluded.generated_at
+                """,
+                (file_id, summary, keywords_json, purpose, llm_tool, generated_at),
+            )
+            conn.commit()
+
+    def get_semantic_metadata(self, file_id: int) -> Optional[Dict[str, Any]]:
+        """Get semantic metadata for a file.
+
+        Args:
+            file_id: File ID from files table
+
+        Returns:
+            Dict with summary, keywords, purpose, llm_tool, generated_at, or None if not found
+        """
+        with self._lock:
+            conn = self._get_connection()
+
+            row = conn.execute(
+                """
+                SELECT summary, keywords, purpose, llm_tool, generated_at
+                FROM semantic_metadata WHERE file_id=?
+                """,
+                (file_id,),
+            ).fetchone()
+
+            if not row:
+                return None
+
+            import json
+
+            return {
+                "summary": row["summary"],
+                "keywords": json.loads(row["keywords"]) if row["keywords"] else [],
+                "purpose": row["purpose"],
+                "llm_tool": row["llm_tool"],
+                "generated_at": float(row["generated_at"]) if row["generated_at"] else 0.0,
+            }
+
+    def get_files_without_semantic(self) -> List[FileEntry]:
+        """Get all files that don't have semantic metadata.
+
+        Returns:
+            List of FileEntry objects without semantic metadata
+        """
+        with self._lock:
+            conn = self._get_connection()
+
+            rows = conn.execute(
+                """
+                SELECT f.id, f.name, f.full_path, f.language, f.mtime, f.line_count
+                FROM files f
+                LEFT JOIN semantic_metadata sm ON f.id = sm.file_id
+                WHERE sm.id IS NULL
+                ORDER BY f.name
+                """
+            ).fetchall()
+
+            return [
+                FileEntry(
+                    id=int(row["id"]),
+                    name=row["name"],
+                    full_path=Path(row["full_path"]),
+                    language=row["language"],
+                    mtime=float(row["mtime"]) if row["mtime"] else 0.0,
+                    line_count=int(row["line_count"]) if row["line_count"] else 0,
+                )
+                for row in rows
+            ]
+
+    def search_semantic_keywords(self, keyword: str) -> List[Tuple[FileEntry, List[str]]]:
+        """Search files by semantic keywords.
+
+        Args:
+            keyword: Keyword to search for (case-insensitive)
+
+        Returns:
+            List of (FileEntry, keywords) tuples where keyword matches
+        """
+        with self._lock:
+            conn = self._get_connection()
+
+            keyword_pattern = f"%{keyword}%"
+
+            rows = conn.execute(
+                """
+                SELECT f.id, f.name, f.full_path, f.language, f.mtime, f.line_count, sm.keywords
+                FROM files f
+                JOIN semantic_metadata sm ON f.id = sm.file_id
+                WHERE sm.keywords LIKE ? COLLATE NOCASE
+                ORDER BY f.name
+                """,
+                (keyword_pattern,),
+            ).fetchall()
+
+            import json
+
+            results = []
+            for row in rows:
+                file_entry = FileEntry(
+                    id=int(row["id"]),
+                    name=row["name"],
+                    full_path=Path(row["full_path"]),
+                    language=row["language"],
+                    mtime=float(row["mtime"]) if row["mtime"] else 0.0,
+                    line_count=int(row["line_count"]) if row["line_count"] else 0,
+                )
+                keywords = json.loads(row["keywords"]) if row["keywords"] else []
+                results.append((file_entry, keywords))
+
+            return results
+
+    def list_semantic_metadata(
+        self,
+        offset: int = 0,
+        limit: int = 50,
+        llm_tool: Optional[str] = None,
+    ) -> Tuple[List[Dict[str, Any]], int]:
+        """List all semantic metadata with file information.
+
+        Args:
+            offset: Number of records to skip (for pagination)
+            limit: Maximum records to return (max 100)
+            llm_tool: Optional filter by LLM tool used
+
+        Returns:
+            Tuple of (list of metadata dicts, total count)
+        """
+        import json
+
+        with self._lock:
+            conn = self._get_connection()
+
+            base_query = """
+                SELECT f.id as file_id, f.name as file_name, f.full_path,
+                       f.language, f.line_count,
+                       sm.summary, sm.keywords, sm.purpose,
+                       sm.llm_tool, sm.generated_at
+                FROM files f
+                JOIN semantic_metadata sm ON f.id = sm.file_id
+            """
+            count_query = """
+                SELECT COUNT(*) as total
+                FROM files f
+                JOIN semantic_metadata sm ON f.id = sm.file_id
+            """
+
+            params: List[Any] = []
+            if llm_tool:
+                base_query += " WHERE sm.llm_tool = ?"
+                count_query += " WHERE sm.llm_tool = ?"
+                params.append(llm_tool)
+
+            base_query += " ORDER BY sm.generated_at DESC LIMIT ? OFFSET ?"
+            params.extend([min(limit, 100), offset])
+
+            count_params = [llm_tool] if llm_tool else []
+            total_row = conn.execute(count_query, count_params).fetchone()
+            total = int(total_row["total"]) if total_row else 0
+
+            rows = conn.execute(base_query, params).fetchall()
+
+            results = []
+            for row in rows:
+                results.append({
+                    "file_id": int(row["file_id"]),
+                    "file_name": row["file_name"],
+                    "full_path": row["full_path"],
+                    "language": row["language"],
+                    "line_count": int(row["line_count"]) if row["line_count"] else 0,
+                    "summary": row["summary"],
+                    "keywords": json.loads(row["keywords"]) if row["keywords"] else [],
+                    "purpose": row["purpose"],
+                    "llm_tool": row["llm_tool"],
+                    "generated_at": float(row["generated_at"]) if row["generated_at"] else 0.0,
+                })
+
+            return results, total
+
     # === Subdirectory Links ===
 
     def register_subdir(
@@ -748,12 +964,28 @@ class DirIndexStore:
                 """
             )
 
+            # Semantic metadata table
+            conn.execute(
+                """
+                CREATE TABLE IF NOT EXISTS semantic_metadata (
+                    id INTEGER PRIMARY KEY,
+                    file_id INTEGER UNIQUE REFERENCES files(id) ON DELETE CASCADE,
+                    summary TEXT,
+                    keywords TEXT,
+                    purpose TEXT,
+                    llm_tool TEXT,
+                    generated_at REAL
+                )
+                """
+            )
+
             # Indexes
             conn.execute("CREATE INDEX IF NOT EXISTS idx_files_name ON files(name)")
             conn.execute("CREATE INDEX IF NOT EXISTS idx_files_path ON files(full_path)")
             conn.execute("CREATE INDEX IF NOT EXISTS idx_subdirs_name ON subdirs(name)")
             conn.execute("CREATE INDEX IF NOT EXISTS idx_symbols_name ON symbols(name)")
             conn.execute("CREATE INDEX IF NOT EXISTS idx_symbols_file ON symbols(file_id)")
+            conn.execute("CREATE INDEX IF NOT EXISTS idx_semantic_file ON semantic_metadata(file_id)")
 
         except sqlite3.DatabaseError as exc:
             raise StorageError(f"Failed to create schema: {exc}") from exc

codex-lens/tests/test_llm_enhancer.py

@@ -0,0 +1,831 @@
+"""Tests for LLM-based semantic enhancement functionality.
+
+Tests cover:
+- LLMConfig and data classes
+- LLMEnhancer initialization and configuration
+- Prompt building and JSON parsing
+- Batch processing logic
+- CCW CLI invocation (mocked)
+- EnhancedSemanticIndexer integration
+- Error handling and fallback behavior
+"""
+
+import json
+import tempfile
+from pathlib import Path
+from typing import Dict, Any
+from unittest.mock import MagicMock, patch, PropertyMock
+
+import pytest
+
+from codexlens.entities import SemanticChunk, Symbol
+from codexlens.semantic.llm_enhancer import (
+    SemanticMetadata,
+    FileData,
+    LLMConfig,
+    LLMEnhancer,
+    EnhancedSemanticIndexer,
+    create_enhancer,
+    create_enhanced_indexer,
+)
+
+
+# === Data Class Tests ===
+
+class TestSemanticMetadata:
+    """Tests for SemanticMetadata dataclass."""
+
+    def test_basic_creation(self):
+        """Test creating SemanticMetadata with required fields."""
+        metadata = SemanticMetadata(
+            summary="Authentication handler",
+            keywords=["auth", "login", "jwt"],
+            purpose="auth",
+        )
+        assert metadata.summary == "Authentication handler"
+        assert metadata.keywords == ["auth", "login", "jwt"]
+        assert metadata.purpose == "auth"
+        assert metadata.file_path is None
+        assert metadata.symbol_name is None
+        assert metadata.llm_tool is None
+
+    def test_full_creation(self):
+        """Test creating SemanticMetadata with all fields."""
+        metadata = SemanticMetadata(
+            summary="User login function",
+            keywords=["login", "user"],
+            purpose="auth",
+            file_path="/test/auth.py",
+            symbol_name="login",
+            llm_tool="gemini",
+        )
+        assert metadata.file_path == "/test/auth.py"
+        assert metadata.symbol_name == "login"
+        assert metadata.llm_tool == "gemini"
+
+    def test_empty_keywords(self):
+        """Test creating SemanticMetadata with empty keywords."""
+        metadata = SemanticMetadata(
+            summary="Empty",
+            keywords=[],
+            purpose="",
+        )
+        assert metadata.keywords == []
+
+
+class TestFileData:
+    """Tests for FileData dataclass."""
+
+    def test_basic_creation(self):
+        """Test creating FileData with required fields."""
+        data = FileData(
+            path="/test/file.py",
+            content="def hello(): pass",
+            language="python",
+        )
+        assert data.path == "/test/file.py"
+        assert data.content == "def hello(): pass"
+        assert data.language == "python"
+        assert data.symbols == []
+
+    def test_with_symbols(self):
+        """Test creating FileData with symbols."""
+        symbols = [
+            Symbol(name="hello", kind="function", range=(1, 1)),
+            Symbol(name="MyClass", kind="class", range=(3, 10)),
+        ]
+        data = FileData(
+            path="/test/file.py",
+            content="code",
+            language="python",
+            symbols=symbols,
+        )
+        assert len(data.symbols) == 2
+        assert data.symbols[0].name == "hello"
+
+
+class TestLLMConfig:
+    """Tests for LLMConfig dataclass."""
+
+    def test_default_values(self):
+        """Test default configuration values."""
+        config = LLMConfig()
+        assert config.tool == "gemini"
+        assert config.fallback_tool == "qwen"
+        assert config.timeout_ms == 300000
+        assert config.batch_size == 5
+        assert config.max_content_chars == 8000
+        assert config.enabled is True
+
+    def test_custom_values(self):
+        """Test custom configuration values."""
+        config = LLMConfig(
+            tool="qwen",
+            fallback_tool="gemini",
+            timeout_ms=600000,
+            batch_size=10,
+            max_content_chars=4000,
+            enabled=False,
+        )
+        assert config.tool == "qwen"
+        assert config.fallback_tool == "gemini"
+        assert config.timeout_ms == 600000
+        assert config.batch_size == 10
+        assert config.max_content_chars == 4000
+        assert config.enabled is False
+
+    @patch.dict("os.environ", {"CCW_CLI_SECONDARY_TOOL": "codex", "CCW_CLI_FALLBACK_TOOL": "gemini"})
+    def test_env_override(self):
+        """Test environment variable override."""
+        config = LLMConfig()
+        assert config.tool == "codex"
+        assert config.fallback_tool == "gemini"
+
+
+# === LLMEnhancer Tests ===
+
+class TestLLMEnhancerInit:
+    """Tests for LLMEnhancer initialization."""
+
+    def test_default_init(self):
+        """Test default initialization."""
+        enhancer = LLMEnhancer()
+        assert enhancer.config is not None
+        assert enhancer.config.tool == "gemini"
+        assert enhancer._ccw_available is None
+
+    def test_custom_config(self):
+        """Test initialization with custom config."""
+        config = LLMConfig(tool="qwen", batch_size=3)
+        enhancer = LLMEnhancer(config)
+        assert enhancer.config.tool == "qwen"
+        assert enhancer.config.batch_size == 3
+
+
+class TestLLMEnhancerAvailability:
+    """Tests for CCW CLI availability check."""
+
+    @patch("shutil.which")
+    def test_ccw_available(self, mock_which):
+        """Test CCW available returns True."""
+        mock_which.return_value = "/usr/bin/ccw"
+        enhancer = LLMEnhancer()
+
+        result = enhancer.check_available()
+
+        assert result is True
+        assert enhancer._ccw_available is True
+        mock_which.assert_called_with("ccw")
+
+    @patch("shutil.which")
+    def test_ccw_not_available(self, mock_which):
+        """Test CCW not available returns False."""
+        mock_which.return_value = None
+        enhancer = LLMEnhancer()
+
+        result = enhancer.check_available()
+
+        assert result is False
+        assert enhancer._ccw_available is False
+
+    @patch("shutil.which")
+    def test_ccw_availability_cached(self, mock_which):
+        """Test availability result is cached."""
+        mock_which.return_value = "/usr/bin/ccw"
+        enhancer = LLMEnhancer()
+
+        # First call
+        enhancer.check_available()
+        # Second call
+        enhancer.check_available()
+
+        # which should only be called once
+        mock_which.assert_called_once()
+
+
+class TestPromptBuilding:
+    """Tests for prompt building."""
+
+    def test_build_single_file_prompt(self):
+        """Test prompt building with single file."""
+        enhancer = LLMEnhancer()
+        files = [
+            FileData(
+                path="/test/auth.py",
+                content="def login(): pass",
+                language="python",
+            )
+        ]
+
+        prompt = enhancer._build_batch_prompt(files)
+
+        assert "[FILE: /test/auth.py]" in prompt
+        assert "```python" in prompt
+        assert "def login(): pass" in prompt
+        assert "PURPOSE:" in prompt
+        assert "JSON format output" in prompt
+
+    def test_build_multiple_files_prompt(self):
+        """Test prompt building with multiple files."""
+        enhancer = LLMEnhancer()
+        files = [
+            FileData(path="/test/a.py", content="def a(): pass", language="python"),
+            FileData(path="/test/b.js", content="function b() {}", language="javascript"),
+        ]
+
+        prompt = enhancer._build_batch_prompt(files)
+
+        assert "[FILE: /test/a.py]" in prompt
+        assert "[FILE: /test/b.js]" in prompt
+        assert "```python" in prompt
+        assert "```javascript" in prompt
+
+    def test_build_prompt_truncates_long_content(self):
+        """Test prompt truncates long content."""
+        config = LLMConfig(max_content_chars=100)
+        enhancer = LLMEnhancer(config)
+
+        long_content = "x" * 200
+        files = [FileData(path="/test/long.py", content=long_content, language="python")]
+
+        prompt = enhancer._build_batch_prompt(files)
+
+        assert "... [truncated]" in prompt
+        assert "x" * 200 not in prompt
+
+
+class TestJSONParsing:
+    """Tests for JSON response parsing."""
+
+    def test_parse_valid_response(self):
+        """Test parsing valid JSON response."""
+        enhancer = LLMEnhancer()
+        response = json.dumps({
+            "files": {
+                "/test/auth.py": {
+                    "summary": "Authentication handler",
+                    "keywords": ["auth", "login"],
+                    "purpose": "auth",
+                }
+            }
+        })
+
+        result = enhancer._parse_response(response, "gemini")
+
+        assert "/test/auth.py" in result
+        assert result["/test/auth.py"].summary == "Authentication handler"
+        assert result["/test/auth.py"].keywords == ["auth", "login"]
+        assert result["/test/auth.py"].purpose == "auth"
+        assert result["/test/auth.py"].llm_tool == "gemini"
+
+    def test_parse_response_with_markdown(self):
+        """Test parsing response wrapped in markdown."""
+        enhancer = LLMEnhancer()
+        response = '''```json
+{
+    "files": {
+        "/test/file.py": {
+            "summary": "Test file",
+            "keywords": ["test"],
+            "purpose": "test"
+        }
+    }
+}
+```'''
+
+        result = enhancer._parse_response(response, "qwen")
+
+        assert "/test/file.py" in result
+        assert result["/test/file.py"].summary == "Test file"
+
+    def test_parse_response_multiple_files(self):
+        """Test parsing response with multiple files."""
+        enhancer = LLMEnhancer()
+        response = json.dumps({
+            "files": {
+                "/test/a.py": {"summary": "File A", "keywords": ["a"], "purpose": "util"},
+                "/test/b.py": {"summary": "File B", "keywords": ["b"], "purpose": "api"},
+            }
+        })
+
+        result = enhancer._parse_response(response, "gemini")
+
+        assert len(result) == 2
+        assert result["/test/a.py"].summary == "File A"
+        assert result["/test/b.py"].summary == "File B"
+
+    def test_parse_invalid_json(self):
+        """Test parsing invalid JSON returns empty dict."""
+        enhancer = LLMEnhancer()
+        response = "not valid json at all"
+
+        result = enhancer._parse_response(response, "gemini")
+
+        assert result == {}
+
+    def test_parse_empty_response(self):
+        """Test parsing empty response returns empty dict."""
+        enhancer = LLMEnhancer()
+
+        result = enhancer._parse_response("", "gemini")
+
+        assert result == {}
+
+
+class TestJSONExtraction:
+    """Tests for JSON extraction from mixed text."""
+
+    def test_extract_json_from_plain(self):
+        """Test extracting JSON from plain text."""
+        enhancer = LLMEnhancer()
+        text = '{"key": "value"}'
+
+        result = enhancer._extract_json(text)
+
+        assert result == '{"key": "value"}'
+
+    def test_extract_json_from_markdown(self):
+        """Test extracting JSON from markdown code block."""
+        enhancer = LLMEnhancer()
+        text = '''```json
+{"key": "value"}
+```'''
+
+        result = enhancer._extract_json(text)
+
+        assert result == '{"key": "value"}'
+
+    def test_extract_json_with_surrounding_text(self):
+        """Test extracting JSON with surrounding text."""
+        enhancer = LLMEnhancer()
+        text = 'Here is the result: {"key": "value"} That is all.'
+
+        result = enhancer._extract_json(text)
+
+        assert result == '{"key": "value"}'
+
+    def test_extract_nested_json(self):
+        """Test extracting nested JSON."""
+        enhancer = LLMEnhancer()
+        text = '{"outer": {"inner": "value"}}'
+
+        result = enhancer._extract_json(text)
+
+        assert '"outer"' in result
+        assert '"inner"' in result
+
+    def test_extract_no_json(self):
+        """Test extracting from text without JSON."""
+        enhancer = LLMEnhancer()
+        text = "No JSON here at all"
+
+        result = enhancer._extract_json(text)
+
+        assert result is None
+
+    def test_extract_malformed_json(self):
+        """Test extracting malformed JSON returns None."""
+        enhancer = LLMEnhancer()
+        text = '{"key": "value"'  # Missing closing brace
+
+        result = enhancer._extract_json(text)
+
+        assert result is None
+
+
+class TestEnhanceFiles:
+    """Tests for enhance_files method."""
+
+    @patch.object(LLMEnhancer, "check_available", return_value=False)
+    def test_enhance_files_ccw_not_available(self, mock_check):
+        """Test enhance_files returns empty when CCW not available."""
+        enhancer = LLMEnhancer()
+        files = [FileData(path="/test/a.py", content="code", language="python")]
+
+        result = enhancer.enhance_files(files)
+
+        assert result == {}
+
+    def test_enhance_files_disabled(self):
+        """Test enhance_files returns empty when disabled."""
+        config = LLMConfig(enabled=False)
+        enhancer = LLMEnhancer(config)
+        files = [FileData(path="/test/a.py", content="code", language="python")]
+
+        result = enhancer.enhance_files(files)
+
+        assert result == {}
+
+    @patch.object(LLMEnhancer, "check_available", return_value=True)
+    def test_enhance_files_empty_list(self, mock_check):
+        """Test enhance_files with empty list returns empty dict."""
+        enhancer = LLMEnhancer()
+
+        result = enhancer.enhance_files([])
+
+        assert result == {}
+
+    @patch.object(LLMEnhancer, "check_available", return_value=True)
+    @patch.object(LLMEnhancer, "_invoke_ccw_cli")
+    def test_enhance_files_success(self, mock_invoke, mock_check):
+        """Test enhance_files successful processing."""
+        mock_invoke.return_value = {
+            "success": True,
+            "stdout": json.dumps({
+                "files": {
+                    "/test/auth.py": {
+                        "summary": "Auth module",
+                        "keywords": ["auth"],
+                        "purpose": "auth",
+                    }
+                }
+            }),
+            "stderr": "",
+            "exit_code": 0,
+        }
+
+        enhancer = LLMEnhancer()
+        files = [FileData(path="/test/auth.py", content="def login(): pass", language="python")]
+
+        result = enhancer.enhance_files(files)
+
+        assert "/test/auth.py" in result
+        assert result["/test/auth.py"].summary == "Auth module"
+
+    @patch.object(LLMEnhancer, "check_available", return_value=True)
+    @patch.object(LLMEnhancer, "_invoke_ccw_cli")
+    def test_enhance_files_fallback(self, mock_invoke, mock_check):
+        """Test enhance_files falls back to secondary tool."""
+        # First call fails, second succeeds
+        mock_invoke.side_effect = [
+            {"success": False, "stdout": "", "stderr": "error", "exit_code": 1},
+            {
+                "success": True,
+                "stdout": json.dumps({
+                    "files": {
+                        "/test/file.py": {
+                            "summary": "Fallback result",
+                            "keywords": ["fallback"],
+                            "purpose": "util",
+                        }
+                    }
+                }),
+                "stderr": "",
+                "exit_code": 0,
+            },
+        ]
+
+        enhancer = LLMEnhancer()
+        files = [FileData(path="/test/file.py", content="code", language="python")]
+
+        result = enhancer.enhance_files(files)
+
+        assert "/test/file.py" in result
+        assert result["/test/file.py"].summary == "Fallback result"
+        assert mock_invoke.call_count == 2
+
+
+class TestEnhanceFile:
+    """Tests for enhance_file single file method."""
+
+    @patch.object(LLMEnhancer, "enhance_files")
+    def test_enhance_file_success(self, mock_enhance_files):
+        """Test enhance_file returns metadata on success."""
+        mock_enhance_files.return_value = {
+            "/test/auth.py": SemanticMetadata(
+                summary="Auth module",
+                keywords=["auth", "login"],
+                purpose="auth",
+                file_path="/test/auth.py",
+                llm_tool="gemini",
+            )
+        }
+
+        enhancer = LLMEnhancer()
+        result = enhancer.enhance_file("/test/auth.py", "def login(): pass", "python")
+
+        assert result.summary == "Auth module"
+        assert result.keywords == ["auth", "login"]
+
+    @patch.object(LLMEnhancer, "enhance_files")
+    def test_enhance_file_fallback_on_failure(self, mock_enhance_files):
+        """Test enhance_file returns default metadata on failure."""
+        mock_enhance_files.return_value = {}  # Enhancement failed
+
+        enhancer = LLMEnhancer()
+        result = enhancer.enhance_file("/test/file.py", "code", "python")
+
+        assert "python" in result.summary.lower()
+        assert "python" in result.keywords
+        assert result.purpose == "unknown"
+
+
+class TestBatchProcessing:
+    """Tests for batch processing."""
+
+    @patch.object(LLMEnhancer, "check_available", return_value=True)
+    @patch.object(LLMEnhancer, "_process_batch")
+    def test_batch_processing(self, mock_process, mock_check):
+        """Test files are processed in batches."""
+        mock_process.return_value = {}
+
+        config = LLMConfig(batch_size=2)
+        enhancer = LLMEnhancer(config)
+
+        files = [
+            FileData(path=f"/test/file{i}.py", content="code", language="python")
+            for i in range(5)
+        ]
+
+        enhancer.enhance_files(files)
+
+        # 5 files with batch_size=2 should result in 3 batches
+        assert mock_process.call_count == 3
+
+    @patch.object(LLMEnhancer, "check_available", return_value=True)
+    @patch.object(LLMEnhancer, "_process_batch")
+    def test_batch_continues_on_error(self, mock_process, mock_check):
+        """Test batch processing continues on error."""
+        # First batch fails, second succeeds
+        mock_process.side_effect = [
+            Exception("Batch 1 failed"),
+            {"/test/file2.py": SemanticMetadata(summary="OK", keywords=[], purpose="")},
+        ]
+
+        config = LLMConfig(batch_size=1)
+        enhancer = LLMEnhancer(config)
+
+        files = [
+            FileData(path="/test/file1.py", content="code", language="python"),
+            FileData(path="/test/file2.py", content="code", language="python"),
+        ]
+
+        result = enhancer.enhance_files(files)
+
+        # Should still get results from second batch
+        assert "/test/file2.py" in result
+
+
+# === CCW CLI Invocation Tests ===
+
+class TestCCWInvocation:
+    """Tests for CCW CLI invocation."""
+
+    @patch("subprocess.run")
+    @patch("shutil.which", return_value="/usr/bin/ccw")
+    def test_invoke_success(self, mock_which, mock_run):
+        """Test successful CCW CLI invocation."""
+        mock_run.return_value = MagicMock(
+            returncode=0,
+            stdout='{"files": {}}',
+            stderr="",
+        )
+
+        enhancer = LLMEnhancer()
+        result = enhancer._invoke_ccw_cli("test prompt", tool="gemini")
+
+        assert result["success"] is True
+        assert result["exit_code"] == 0
+
+    @patch("subprocess.run")
+    @patch("shutil.which", return_value="/usr/bin/ccw")
+    def test_invoke_failure(self, mock_which, mock_run):
+        """Test failed CCW CLI invocation."""
+        mock_run.return_value = MagicMock(
+            returncode=1,
+            stdout="",
+            stderr="Error occurred",
+        )
+
+        enhancer = LLMEnhancer()
+        result = enhancer._invoke_ccw_cli("test prompt", tool="gemini")
+
+        assert result["success"] is False
+        assert result["exit_code"] == 1
+
+    @patch("subprocess.run")
+    @patch("shutil.which", return_value="/usr/bin/ccw")
+    def test_invoke_timeout(self, mock_which, mock_run):
+        """Test CCW CLI timeout handling."""
+        import subprocess
+        mock_run.side_effect = subprocess.TimeoutExpired(cmd="ccw", timeout=300)
+
+        enhancer = LLMEnhancer()
+        result = enhancer._invoke_ccw_cli("test prompt", tool="gemini")
+
+        assert result["success"] is False
+        assert "timeout" in result["stderr"]
+
+    @patch("subprocess.run")
+    @patch("shutil.which", return_value=None)
+    def test_invoke_ccw_not_found(self, mock_which, mock_run):
+        """Test CCW CLI not found handling."""
+        mock_run.side_effect = FileNotFoundError()
+
+        enhancer = LLMEnhancer()
+        result = enhancer._invoke_ccw_cli("test prompt", tool="gemini")
+
+        assert result["success"] is False
+        assert "not found" in result["stderr"]
+
+
+# === EnhancedSemanticIndexer Tests ===
+
+class TestEnhancedSemanticIndexer:
+    """Tests for EnhancedSemanticIndexer integration."""
+
+    @pytest.fixture
+    def mock_enhancer(self):
+        """Create mock LLM enhancer."""
+        enhancer = MagicMock(spec=LLMEnhancer)
+        enhancer.enhance_files.return_value = {
+            "/test/auth.py": SemanticMetadata(
+                summary="Authentication handler",
+                keywords=["auth", "login", "jwt"],
+                purpose="auth",
+                file_path="/test/auth.py",
+                llm_tool="gemini",
+            )
+        }
+        return enhancer
+
+    @pytest.fixture
+    def mock_embedder(self):
+        """Create mock embedder."""
+        embedder = MagicMock()
+        embedder.embed.return_value = [[0.1] * 384]
+        embedder.embed_single.return_value = [0.1] * 384
+        return embedder
+
+    @pytest.fixture
+    def mock_vector_store(self):
+        """Create mock vector store."""
+        store = MagicMock()
+        store.add_chunk.return_value = 1
+        return store
+
+    def test_index_files_empty_list(self, mock_enhancer, mock_embedder, mock_vector_store):
+        """Test indexing empty file list."""
+        indexer = EnhancedSemanticIndexer(mock_enhancer, mock_embedder, mock_vector_store)
+
+        result = indexer.index_files([])
+
+        assert result == 0
+        mock_enhancer.enhance_files.assert_not_called()
+
+    def test_index_files_with_llm_enhancement(self, mock_enhancer, mock_embedder, mock_vector_store):
+        """Test indexing with LLM enhancement."""
+        indexer = EnhancedSemanticIndexer(mock_enhancer, mock_embedder, mock_vector_store)
+        files = [FileData(path="/test/auth.py", content="def login(): pass", language="python")]
+
+        result = indexer.index_files(files)
+
+        assert result == 1
+        mock_enhancer.enhance_files.assert_called_once()
+        mock_embedder.embed.assert_called_once()
+        mock_vector_store.add_chunk.assert_called_once()
+
+    def test_index_files_fallback_to_raw_code(self, mock_embedder, mock_vector_store):
+        """Test indexing falls back to raw code when LLM fails."""
+        mock_enhancer = MagicMock(spec=LLMEnhancer)
+        mock_enhancer.enhance_files.return_value = {}  # No enhancement
+
+        indexer = EnhancedSemanticIndexer(mock_enhancer, mock_embedder, mock_vector_store)
+        files = [FileData(path="/test/file.py", content="code", language="python")]
+
+        result = indexer.index_files(files)
+
+        assert result == 1
+        mock_embedder.embed_single.assert_called()
+
+    def test_create_embeddable_text(self, mock_enhancer, mock_embedder, mock_vector_store):
+        """Test embeddable text creation."""
+        indexer = EnhancedSemanticIndexer(mock_enhancer, mock_embedder, mock_vector_store)
+
+        metadata = SemanticMetadata(
+            summary="Handles user authentication",
+            keywords=["auth", "login", "user"],
+            purpose="auth",
+        )
+        file_data = FileData(path="/test/auth.py", content="code", language="python")
+
+        text = indexer._create_embeddable_text(metadata, file_data)
+
+        assert "Handles user authentication" in text
+        assert "auth" in text.lower()
+        assert "Keywords:" in text
+        assert "auth.py" in text
+
+
+# === Factory Function Tests ===
+
+class TestFactoryFunctions:
+    """Tests for factory functions."""
+
+    def test_create_enhancer_default(self):
+        """Test create_enhancer with defaults."""
+        enhancer = create_enhancer()
+
+        assert enhancer.config.tool == "gemini"
+        assert enhancer.config.enabled is True
+
+    def test_create_enhancer_custom(self):
+        """Test create_enhancer with custom params."""
+        enhancer = create_enhancer(
+            tool="qwen",
+            timeout_ms=600000,
+            batch_size=10,
+            enabled=False,
+        )
+
+        assert enhancer.config.tool == "qwen"
+        assert enhancer.config.timeout_ms == 600000
+        assert enhancer.config.batch_size == 10
+        assert enhancer.config.enabled is False
+
+    @pytest.mark.skipif(
+        not pytest.importorskip("codexlens.semantic", reason="semantic not available"),
+        reason="Semantic dependencies not installed"
+    )
+    def test_create_enhanced_indexer(self, tmp_path):
+        """Test create_enhanced_indexer factory."""
+        try:
+            from codexlens.semantic import SEMANTIC_AVAILABLE
+            if not SEMANTIC_AVAILABLE:
+                pytest.skip("Semantic dependencies not installed")
+
+            db_path = tmp_path / "semantic.db"
+            indexer = create_enhanced_indexer(db_path, llm_tool="gemini", llm_enabled=False)
+
+            assert indexer.enhancer is not None
+            assert indexer.embedder is not None
+            assert indexer.vector_store is not None
+        except ImportError:
+            pytest.skip("Semantic dependencies not installed")
+
+
+# === Edge Cases ===
+
+class TestEdgeCases:
+    """Tests for edge cases."""
+
+    def test_semantic_metadata_with_special_chars(self):
+        """Test metadata with special characters."""
+        metadata = SemanticMetadata(
+            summary='Test "quoted" and \'single\' quotes',
+            keywords=["special", "chars", "test's"],
+            purpose="test",
+        )
+        assert '"quoted"' in metadata.summary
+        assert "test's" in metadata.keywords
+
+    def test_file_data_with_unicode(self):
+        """Test FileData with unicode content."""
+        data = FileData(
+            path="/test/中文.py",
+            content="def 你好(): return '世界'",
+            language="python",
+        )
+        assert "中文" in data.path
+        assert "你好" in data.content
+
+    @patch.object(LLMEnhancer, "check_available", return_value=True)
+    @patch.object(LLMEnhancer, "_invoke_ccw_cli")
+    def test_enhance_with_very_long_content(self, mock_invoke, mock_check):
+        """Test enhancement with very long content."""
+        mock_invoke.return_value = {
+            "success": True,
+            "stdout": json.dumps({"files": {}}),
+            "stderr": "",
+            "exit_code": 0,
+        }
+
+        config = LLMConfig(max_content_chars=100)
+        enhancer = LLMEnhancer(config)
+
+        long_content = "x" * 10000
+        files = [FileData(path="/test/long.py", content=long_content, language="python")]
+
+        enhancer.enhance_files(files)
+
+        # Should not crash, content should be truncated in prompt
+        mock_invoke.assert_called_once()
+
+    def test_parse_response_with_missing_fields(self):
+        """Test parsing response with missing fields."""
+        enhancer = LLMEnhancer()
+        response = json.dumps({
+            "files": {
+                "/test/file.py": {
+                    "summary": "Only summary provided",
+                    # keywords and purpose missing
+                }
+            }
+        })
+
+        result = enhancer._parse_response(response, "gemini")
+
+        assert "/test/file.py" in result
+        assert result["/test/file.py"].summary == "Only summary provided"
+        assert result["/test/file.py"].keywords == []
+        assert result["/test/file.py"].purpose == ""

codex-lens/tests/test_vector_search_full.py

@@ -0,0 +1,747 @@
+"""Full coverage tests for vector/semantic search functionality.
+
+Tests cover:
+- Embedder model loading and embedding generation
+- VectorStore CRUD operations and caching
+- Cosine similarity computation
+- Semantic search accuracy and relevance
+- Performance benchmarks
+- Edge cases and error handling
+- Thread safety and concurrent access
+"""
+
+import json
+import tempfile
+import threading
+import time
+from pathlib import Path
+from typing import List
+
+import pytest
+
+from codexlens.entities import SemanticChunk, Symbol, SearchResult
+from codexlens.semantic import SEMANTIC_AVAILABLE, check_semantic_available
+
+# Skip all tests if semantic dependencies not available
+pytestmark = pytest.mark.skipif(
+    not SEMANTIC_AVAILABLE,
+    reason="Semantic search dependencies not installed (pip install codexlens[semantic])"
+)
+
+
+# === Fixtures ===
+
+@pytest.fixture
+def temp_db(tmp_path):
+    """Create temporary database path."""
+    return tmp_path / "test_semantic.db"
+
+
+@pytest.fixture
+def embedder():
+    """Create Embedder instance."""
+    from codexlens.semantic.embedder import Embedder
+    return Embedder()
+
+
+@pytest.fixture
+def vector_store(temp_db):
+    """Create VectorStore instance."""
+    from codexlens.semantic.vector_store import VectorStore
+    return VectorStore(temp_db)
+
+
+@pytest.fixture
+def sample_code_chunks():
+    """Sample code chunks for testing."""
+    return [
+        {
+            "content": "def authenticate(username, password): return check_credentials(username, password)",
+            "metadata": {"symbol_name": "authenticate", "symbol_kind": "function", "start_line": 1, "end_line": 1, "language": "python"},
+        },
+        {
+            "content": "class DatabaseConnection:\n    def connect(self, host, port): pass\n    def execute(self, query): pass",
+            "metadata": {"symbol_name": "DatabaseConnection", "symbol_kind": "class", "start_line": 1, "end_line": 3, "language": "python"},
+        },
+        {
+            "content": "async function fetchUserData(userId) { return await api.get('/users/' + userId); }",
+            "metadata": {"symbol_name": "fetchUserData", "symbol_kind": "function", "start_line": 1, "end_line": 1, "language": "javascript"},
+        },
+        {
+            "content": "def calculate_sum(numbers): return sum(numbers)",
+            "metadata": {"symbol_name": "calculate_sum", "symbol_kind": "function", "start_line": 1, "end_line": 1, "language": "python"},
+        },
+        {
+            "content": "class UserProfile:\n    def __init__(self, name, email):\n        self.name = name\n        self.email = email",
+            "metadata": {"symbol_name": "UserProfile", "symbol_kind": "class", "start_line": 1, "end_line": 4, "language": "python"},
+        },
+    ]
+
+
+# === Embedder Tests ===
+
+class TestEmbedder:
+    """Tests for Embedder class."""
+
+    def test_embedder_initialization(self, embedder):
+        """Test embedder initializes correctly."""
+        assert embedder.model_name == "BAAI/bge-small-en-v1.5"
+        assert embedder.EMBEDDING_DIM == 384
+        assert embedder._model is None  # Lazy loading
+
+    def test_embed_single_returns_correct_dimension(self, embedder):
+        """Test single embedding has correct dimension."""
+        text = "def hello(): print('world')"
+        embedding = embedder.embed_single(text)
+
+        assert isinstance(embedding, list)
+        assert len(embedding) == 384
+        assert all(isinstance(x, float) for x in embedding)
+
+    def test_embed_batch_returns_correct_count(self, embedder):
+        """Test batch embedding returns correct number of embeddings."""
+        texts = [
+            "def foo(): pass",
+            "def bar(): pass",
+            "def baz(): pass",
+        ]
+        embeddings = embedder.embed(texts)
+
+        assert len(embeddings) == len(texts)
+        assert all(len(e) == 384 for e in embeddings)
+
+    def test_embed_empty_string(self, embedder):
+        """Test embedding empty string."""
+        embedding = embedder.embed_single("")
+        assert len(embedding) == 384
+
+    def test_embed_unicode_text(self, embedder):
+        """Test embedding unicode text."""
+        text = "def 你好(): return '世界'"
+        embedding = embedder.embed_single(text)
+        assert len(embedding) == 384
+
+    def test_embed_long_text(self, embedder):
+        """Test embedding long text."""
+        text = "def process(): pass\n" * 100
+        embedding = embedder.embed_single(text)
+        assert len(embedding) == 384
+
+    def test_embed_special_characters(self, embedder):
+        """Test embedding text with special characters."""
+        text = "def test(): return {'key': 'value', '@decorator': True}"
+        embedding = embedder.embed_single(text)
+        assert len(embedding) == 384
+
+    def test_lazy_model_loading(self, embedder):
+        """Test model loads lazily on first embed call."""
+        assert embedder._model is None
+        embedder.embed_single("test")
+        assert embedder._model is not None
+
+    def test_model_reuse(self, embedder):
+        """Test model is reused across multiple calls."""
+        embedder.embed_single("test1")
+        model_ref = embedder._model
+        embedder.embed_single("test2")
+        assert embedder._model is model_ref  # Same instance
+
+
+class TestEmbeddingSimilarity:
+    """Tests for embedding similarity."""
+
+    def test_identical_text_similarity(self, embedder):
+        """Test identical text has similarity ~1.0."""
+        from codexlens.semantic.vector_store import _cosine_similarity
+
+        text = "def calculate_sum(a, b): return a + b"
+        emb1 = embedder.embed_single(text)
+        emb2 = embedder.embed_single(text)
+
+        similarity = _cosine_similarity(emb1, emb2)
+        assert similarity > 0.99, "Identical text should have ~1.0 similarity"
+
+    def test_similar_code_high_similarity(self, embedder):
+        """Test similar code has high similarity."""
+        from codexlens.semantic.vector_store import _cosine_similarity
+
+        code1 = "def add(a, b): return a + b"
+        code2 = "def sum_numbers(x, y): return x + y"
+
+        emb1 = embedder.embed_single(code1)
+        emb2 = embedder.embed_single(code2)
+
+        similarity = _cosine_similarity(emb1, emb2)
+        assert similarity > 0.6, "Similar functions should have high similarity"
+
+    def test_different_code_lower_similarity(self, embedder):
+        """Test different code has lower similarity than similar code."""
+        from codexlens.semantic.vector_store import _cosine_similarity
+
+        code1 = "def add(a, b): return a + b"
+        code2 = "def sum_numbers(x, y): return x + y"
+        code3 = "class UserAuth: def login(self, user, pwd): pass"
+
+        emb1 = embedder.embed_single(code1)
+        emb2 = embedder.embed_single(code2)
+        emb3 = embedder.embed_single(code3)
+
+        sim_similar = _cosine_similarity(emb1, emb2)
+        sim_different = _cosine_similarity(emb1, emb3)
+
+        assert sim_similar > sim_different, "Similar code should have higher similarity"
+
+    def test_zero_vector_similarity(self):
+        """Test cosine similarity with zero vector."""
+        from codexlens.semantic.vector_store import _cosine_similarity
+
+        zero_vec = [0.0] * 384
+        normal_vec = [1.0] * 384
+
+        similarity = _cosine_similarity(zero_vec, normal_vec)
+        assert similarity == 0.0, "Zero vector should have 0 similarity"
+
+
+# === VectorStore Tests ===
+
+class TestVectorStoreCRUD:
+    """Tests for VectorStore CRUD operations."""
+
+    def test_add_chunk(self, vector_store, embedder):
+        """Test adding a single chunk."""
+        chunk = SemanticChunk(
+            content="def test(): pass",
+            metadata={"language": "python"},
+        )
+        chunk.embedding = embedder.embed_single(chunk.content)
+
+        chunk_id = vector_store.add_chunk(chunk, "/test/file.py")
+
+        assert chunk_id > 0
+        assert vector_store.count_chunks() == 1
+
+    def test_add_chunk_without_embedding_raises(self, vector_store):
+        """Test adding chunk without embedding raises error."""
+        chunk = SemanticChunk(content="def test(): pass", metadata={})
+
+        with pytest.raises(ValueError, match="must have embedding"):
+            vector_store.add_chunk(chunk, "/test/file.py")
+
+    def test_add_chunks_batch(self, vector_store, embedder, sample_code_chunks):
+        """Test batch adding chunks."""
+        chunks = []
+        for data in sample_code_chunks:
+            chunk = SemanticChunk(content=data["content"], metadata=data["metadata"])
+            chunk.embedding = embedder.embed_single(chunk.content)
+            chunks.append(chunk)
+
+        ids = vector_store.add_chunks(chunks, "/test/multi.py")
+
+        assert len(ids) == len(chunks)
+        assert vector_store.count_chunks() == len(chunks)
+
+    def test_add_empty_batch(self, vector_store):
+        """Test adding empty batch returns empty list."""
+        ids = vector_store.add_chunks([], "/test/empty.py")
+        assert ids == []
+
+    def test_delete_file_chunks(self, vector_store, embedder):
+        """Test deleting chunks by file path."""
+        # Add chunks for two files
+        chunk1 = SemanticChunk(content="def a(): pass", metadata={})
+        chunk1.embedding = embedder.embed_single(chunk1.content)
+        vector_store.add_chunk(chunk1, "/test/file1.py")
+
+        chunk2 = SemanticChunk(content="def b(): pass", metadata={})
+        chunk2.embedding = embedder.embed_single(chunk2.content)
+        vector_store.add_chunk(chunk2, "/test/file2.py")
+
+        assert vector_store.count_chunks() == 2
+
+        # Delete one file's chunks
+        deleted = vector_store.delete_file_chunks("/test/file1.py")
+
+        assert deleted == 1
+        assert vector_store.count_chunks() == 1
+
+    def test_delete_nonexistent_file(self, vector_store):
+        """Test deleting non-existent file returns 0."""
+        deleted = vector_store.delete_file_chunks("/nonexistent/file.py")
+        assert deleted == 0
+
+    def test_count_chunks_empty(self, vector_store):
+        """Test count on empty store."""
+        assert vector_store.count_chunks() == 0
+
+
+class TestVectorStoreSearch:
+    """Tests for VectorStore search functionality."""
+
+    def test_search_similar_basic(self, vector_store, embedder, sample_code_chunks):
+        """Test basic similarity search."""
+        # Add chunks
+        for data in sample_code_chunks:
+            chunk = SemanticChunk(content=data["content"], metadata=data["metadata"])
+            chunk.embedding = embedder.embed_single(chunk.content)
+            vector_store.add_chunk(chunk, "/test/file.py")
+
+        # Search
+        query = "function to authenticate user login"
+        query_embedding = embedder.embed_single(query)
+        results = vector_store.search_similar(query_embedding, top_k=3)
+
+        assert len(results) > 0
+        assert all(isinstance(r, SearchResult) for r in results)
+        # Top result should be auth-related
+        assert "authenticate" in results[0].excerpt.lower() or "auth" in results[0].path.lower()
+
+    def test_search_respects_top_k(self, vector_store, embedder, sample_code_chunks):
+        """Test search respects top_k parameter."""
+        # Add all chunks
+        for data in sample_code_chunks:
+            chunk = SemanticChunk(content=data["content"], metadata=data["metadata"])
+            chunk.embedding = embedder.embed_single(chunk.content)
+            vector_store.add_chunk(chunk, "/test/file.py")
+
+        query_embedding = embedder.embed_single("code")
+
+        results_2 = vector_store.search_similar(query_embedding, top_k=2)
+        results_5 = vector_store.search_similar(query_embedding, top_k=5)
+
+        assert len(results_2) <= 2
+        assert len(results_5) <= 5
+
+    def test_search_min_score_filtering(self, vector_store, embedder):
+        """Test min_score filtering."""
+        chunk = SemanticChunk(
+            content="def hello(): print('hello world')",
+            metadata={},
+        )
+        chunk.embedding = embedder.embed_single(chunk.content)
+        vector_store.add_chunk(chunk, "/test/hello.py")
+
+        query_embedding = embedder.embed_single("database connection pool")
+
+        results_no_filter = vector_store.search_similar(query_embedding, min_score=0.0)
+        results_high_filter = vector_store.search_similar(query_embedding, min_score=0.9)
+
+        assert len(results_no_filter) >= len(results_high_filter)
+
+    def test_search_returns_sorted_by_score(self, vector_store, embedder, sample_code_chunks):
+        """Test results are sorted by score descending."""
+        for data in sample_code_chunks:
+            chunk = SemanticChunk(content=data["content"], metadata=data["metadata"])
+            chunk.embedding = embedder.embed_single(chunk.content)
+            vector_store.add_chunk(chunk, "/test/file.py")
+
+        query_embedding = embedder.embed_single("function")
+        results = vector_store.search_similar(query_embedding, top_k=5)
+
+        if len(results) > 1:
+            for i in range(len(results) - 1):
+                assert results[i].score >= results[i + 1].score
+
+    def test_search_includes_metadata(self, vector_store, embedder):
+        """Test search results include metadata."""
+        chunk = SemanticChunk(
+            content="def test_function(): pass",
+            metadata={
+                "symbol_name": "test_function",
+                "symbol_kind": "function",
+                "start_line": 10,
+                "end_line": 15,
+            },
+        )
+        chunk.embedding = embedder.embed_single(chunk.content)
+        vector_store.add_chunk(chunk, "/test/func.py")
+
+        query_embedding = embedder.embed_single("test function")
+        results = vector_store.search_similar(query_embedding, top_k=1)
+
+        assert len(results) == 1
+        assert results[0].symbol_name == "test_function"
+        assert results[0].symbol_kind == "function"
+        assert results[0].start_line == 10
+        assert results[0].end_line == 15
+
+    def test_search_empty_store_returns_empty(self, vector_store, embedder):
+        """Test search on empty store returns empty list."""
+        query_embedding = embedder.embed_single("anything")
+        results = vector_store.search_similar(query_embedding)
+        assert results == []
+
+    def test_search_with_return_full_content_false(self, vector_store, embedder):
+        """Test search with return_full_content=False."""
+        chunk = SemanticChunk(
+            content="def long_function(): " + "pass\n" * 100,
+            metadata={},
+        )
+        chunk.embedding = embedder.embed_single(chunk.content)
+        vector_store.add_chunk(chunk, "/test/long.py")
+
+        query_embedding = embedder.embed_single("function")
+        results = vector_store.search_similar(
+            query_embedding, top_k=1, return_full_content=False
+        )
+
+        assert len(results) == 1
+        assert results[0].content is None
+        assert results[0].excerpt is not None
+
+
+class TestVectorStoreCache:
+    """Tests for VectorStore caching behavior."""
+
+    def test_cache_invalidation_on_add(self, vector_store, embedder):
+        """Test cache is invalidated when chunks are added."""
+        chunk1 = SemanticChunk(content="def a(): pass", metadata={})
+        chunk1.embedding = embedder.embed_single(chunk1.content)
+        vector_store.add_chunk(chunk1, "/test/a.py")
+
+        # Trigger cache population
+        query_embedding = embedder.embed_single("function")
+        vector_store.search_similar(query_embedding)
+
+        initial_version = vector_store._cache_version
+
+        # Add another chunk
+        chunk2 = SemanticChunk(content="def b(): pass", metadata={})
+        chunk2.embedding = embedder.embed_single(chunk2.content)
+        vector_store.add_chunk(chunk2, "/test/b.py")
+
+        assert vector_store._cache_version > initial_version
+        assert vector_store._embedding_matrix is None
+
+    def test_cache_invalidation_on_delete(self, vector_store, embedder):
+        """Test cache is invalidated when chunks are deleted."""
+        chunk = SemanticChunk(content="def a(): pass", metadata={})
+        chunk.embedding = embedder.embed_single(chunk.content)
+        vector_store.add_chunk(chunk, "/test/a.py")
+
+        # Trigger cache population
+        query_embedding = embedder.embed_single("function")
+        vector_store.search_similar(query_embedding)
+
+        initial_version = vector_store._cache_version
+
+        # Delete chunk
+        vector_store.delete_file_chunks("/test/a.py")
+
+        assert vector_store._cache_version > initial_version
+
+    def test_manual_cache_clear(self, vector_store, embedder):
+        """Test manual cache clearing."""
+        chunk = SemanticChunk(content="def a(): pass", metadata={})
+        chunk.embedding = embedder.embed_single(chunk.content)
+        vector_store.add_chunk(chunk, "/test/a.py")
+
+        # Trigger cache population
+        query_embedding = embedder.embed_single("function")
+        vector_store.search_similar(query_embedding)
+
+        assert vector_store._embedding_matrix is not None
+
+        vector_store.clear_cache()
+
+        assert vector_store._embedding_matrix is None
+
+
+# === Semantic Search Accuracy Tests ===
+
+class TestSemanticSearchAccuracy:
+    """Tests for semantic search accuracy and relevance."""
+
+    def test_auth_query_finds_auth_code(self, vector_store, embedder, sample_code_chunks):
+        """Test authentication query finds auth code."""
+        for data in sample_code_chunks:
+            chunk = SemanticChunk(content=data["content"], metadata=data["metadata"])
+            chunk.embedding = embedder.embed_single(chunk.content)
+            vector_store.add_chunk(chunk, "/test/file.py")
+
+        query = "user authentication login"
+        query_embedding = embedder.embed_single(query)
+        results = vector_store.search_similar(query_embedding, top_k=1)
+
+        assert len(results) > 0
+        assert "authenticate" in results[0].excerpt.lower()
+
+    def test_database_query_finds_db_code(self, vector_store, embedder, sample_code_chunks):
+        """Test database query finds database code."""
+        for data in sample_code_chunks:
+            chunk = SemanticChunk(content=data["content"], metadata=data["metadata"])
+            chunk.embedding = embedder.embed_single(chunk.content)
+            vector_store.add_chunk(chunk, "/test/file.py")
+
+        query = "database connection execute query"
+        query_embedding = embedder.embed_single(query)
+        results = vector_store.search_similar(query_embedding, top_k=1)
+
+        assert len(results) > 0
+        assert "database" in results[0].excerpt.lower() or "connect" in results[0].excerpt.lower()
+
+    def test_math_query_finds_calculation_code(self, vector_store, embedder, sample_code_chunks):
+        """Test math query finds calculation code."""
+        for data in sample_code_chunks:
+            chunk = SemanticChunk(content=data["content"], metadata=data["metadata"])
+            chunk.embedding = embedder.embed_single(chunk.content)
+            vector_store.add_chunk(chunk, "/test/file.py")
+
+        query = "sum numbers add calculation"
+        query_embedding = embedder.embed_single(query)
+        results = vector_store.search_similar(query_embedding, top_k=1)
+
+        assert len(results) > 0
+        assert "sum" in results[0].excerpt.lower() or "calculate" in results[0].excerpt.lower()
+
+
+# === Performance Tests ===
+
+class TestVectorSearchPerformance:
+    """Performance tests for vector search."""
+
+    def test_embedding_performance(self, embedder):
+        """Test embedding generation performance."""
+        text = "def calculate_sum(a, b): return a + b"
+
+        # Warm up
+        embedder.embed_single(text)
+
+        # Measure
+        start = time.perf_counter()
+        iterations = 10
+        for _ in range(iterations):
+            embedder.embed_single(text)
+        elapsed = time.perf_counter() - start
+
+        avg_ms = (elapsed / iterations) * 1000
+        assert avg_ms < 100, f"Single embedding should be <100ms, got {avg_ms:.2f}ms"
+
+    def test_batch_embedding_performance(self, embedder):
+        """Test batch embedding performance."""
+        texts = [f"def function_{i}(): pass" for i in range(50)]
+
+        # Warm up
+        embedder.embed(texts[:5])
+
+        # Measure
+        start = time.perf_counter()
+        embedder.embed(texts)
+        elapsed = time.perf_counter() - start
+
+        total_ms = elapsed * 1000
+        per_text_ms = total_ms / len(texts)
+        assert per_text_ms < 20, f"Per-text embedding should be <20ms, got {per_text_ms:.2f}ms"
+
+    def test_search_performance_small(self, vector_store, embedder):
+        """Test search performance with small dataset."""
+        # Add 100 chunks
+        for i in range(100):
+            chunk = SemanticChunk(
+                content=f"def function_{i}(): return {i}",
+                metadata={"index": i},
+            )
+            chunk.embedding = embedder.embed_single(chunk.content)
+            vector_store.add_chunk(chunk, f"/test/file_{i}.py")
+
+        query_embedding = embedder.embed_single("function return value")
+
+        # Warm up
+        vector_store.search_similar(query_embedding)
+
+        # Measure
+        start = time.perf_counter()
+        iterations = 10
+        for _ in range(iterations):
+            vector_store.search_similar(query_embedding)
+        elapsed = time.perf_counter() - start
+
+        avg_ms = (elapsed / iterations) * 1000
+        assert avg_ms < 50, f"Search with 100 chunks should be <50ms, got {avg_ms:.2f}ms"
+
+    def test_search_performance_medium(self, vector_store, embedder):
+        """Test search performance with medium dataset."""
+        # Add 500 chunks in batch
+        chunks = []
+        for i in range(500):
+            chunk = SemanticChunk(
+                content=f"def function_{i}(x): return x * {i}",
+                metadata={"index": i},
+            )
+            chunk.embedding = embedder.embed_single(chunk.content)
+            chunks.append(chunk)
+
+        vector_store.add_chunks(chunks, "/test/bulk.py")
+
+        query_embedding = embedder.embed_single("multiply value")
+
+        # Warm up
+        vector_store.search_similar(query_embedding)
+
+        # Measure
+        start = time.perf_counter()
+        iterations = 5
+        for _ in range(iterations):
+            vector_store.search_similar(query_embedding)
+        elapsed = time.perf_counter() - start
+
+        avg_ms = (elapsed / iterations) * 1000
+        assert avg_ms < 100, f"Search with 500 chunks should be <100ms, got {avg_ms:.2f}ms"
+
+
+# === Thread Safety Tests ===
+
+class TestThreadSafety:
+    """Tests for thread safety."""
+
+    def test_concurrent_searches(self, vector_store, embedder, sample_code_chunks):
+        """Test concurrent searches are thread-safe."""
+        # Populate store
+        for data in sample_code_chunks:
+            chunk = SemanticChunk(content=data["content"], metadata=data["metadata"])
+            chunk.embedding = embedder.embed_single(chunk.content)
+            vector_store.add_chunk(chunk, "/test/file.py")
+
+        results_list = []
+        errors = []
+
+        def search_task(query):
+            try:
+                query_embedding = embedder.embed_single(query)
+                results = vector_store.search_similar(query_embedding, top_k=3)
+                results_list.append(len(results))
+            except Exception as e:
+                errors.append(str(e))
+
+        queries = ["authentication", "database", "function", "class", "async"]
+        threads = [threading.Thread(target=search_task, args=(q,)) for q in queries]
+
+        for t in threads:
+            t.start()
+        for t in threads:
+            t.join()
+
+        assert len(errors) == 0, f"Errors during concurrent search: {errors}"
+        assert len(results_list) == len(queries)
+
+    def test_concurrent_add_and_search(self, vector_store, embedder):
+        """Test concurrent add and search operations."""
+        errors = []
+
+        def add_task(idx):
+            try:
+                chunk = SemanticChunk(
+                    content=f"def task_{idx}(): pass",
+                    metadata={"idx": idx},
+                )
+                chunk.embedding = embedder.embed_single(chunk.content)
+                vector_store.add_chunk(chunk, f"/test/task_{idx}.py")
+            except Exception as e:
+                errors.append(f"Add error: {e}")
+
+        def search_task():
+            try:
+                query_embedding = embedder.embed_single("function task")
+                vector_store.search_similar(query_embedding)
+            except Exception as e:
+                errors.append(f"Search error: {e}")
+
+        threads = []
+        for i in range(10):
+            threads.append(threading.Thread(target=add_task, args=(i,)))
+            threads.append(threading.Thread(target=search_task))
+
+        for t in threads:
+            t.start()
+        for t in threads:
+            t.join()
+
+        assert len(errors) == 0, f"Errors during concurrent ops: {errors}"
+
+
+# === Edge Cases ===
+
+class TestEdgeCases:
+    """Tests for edge cases."""
+
+    def test_very_short_content(self, vector_store, embedder):
+        """Test handling very short content."""
+        chunk = SemanticChunk(content="x", metadata={})
+        chunk.embedding = embedder.embed_single(chunk.content)
+        vector_store.add_chunk(chunk, "/test/short.py")
+
+        query_embedding = embedder.embed_single("x")
+        results = vector_store.search_similar(query_embedding)
+
+        assert len(results) == 1
+
+    def test_special_characters_in_path(self, vector_store, embedder):
+        """Test handling special characters in file path."""
+        chunk = SemanticChunk(content="def test(): pass", metadata={})
+        chunk.embedding = embedder.embed_single(chunk.content)
+
+        special_path = "/test/path with spaces/file-name_v2.py"
+        vector_store.add_chunk(chunk, special_path)
+
+        query_embedding = embedder.embed_single("test function")
+        results = vector_store.search_similar(query_embedding)
+
+        assert len(results) == 1
+        assert results[0].path == special_path
+
+    def test_json_metadata_special_chars(self, vector_store, embedder):
+        """Test metadata with special JSON characters."""
+        metadata = {
+            "description": 'Test "quoted" text with \'single\' quotes',
+            "path": "C:\\Users\\test\\file.py",
+            "tags": ["tag1", "tag2"],
+        }
+        chunk = SemanticChunk(content="def test(): pass", metadata=metadata)
+        chunk.embedding = embedder.embed_single(chunk.content)
+
+        vector_store.add_chunk(chunk, "/test/special.py")
+
+        query_embedding = embedder.embed_single("test")
+        results = vector_store.search_similar(query_embedding)
+
+        assert len(results) == 1
+        assert results[0].metadata["description"] == metadata["description"]
+
+    def test_search_zero_top_k(self, vector_store, embedder):
+        """Test search with top_k=0."""
+        chunk = SemanticChunk(content="def test(): pass", metadata={})
+        chunk.embedding = embedder.embed_single(chunk.content)
+        vector_store.add_chunk(chunk, "/test/file.py")
+
+        query_embedding = embedder.embed_single("test")
+        results = vector_store.search_similar(query_embedding, top_k=0)
+
+        assert results == []
+
+    def test_search_very_high_min_score(self, vector_store, embedder):
+        """Test search with very high min_score filters all results."""
+        chunk = SemanticChunk(content="def hello(): print('world')", metadata={})
+        chunk.embedding = embedder.embed_single(chunk.content)
+        vector_store.add_chunk(chunk, "/test/hello.py")
+
+        # Query something unrelated with very high threshold
+        query_embedding = embedder.embed_single("database connection")
+        results = vector_store.search_similar(query_embedding, min_score=0.99)
+
+        # Should filter out since unrelated
+        assert len(results) == 0
+
+
+# === Availability Check Tests ===
+
+class TestAvailabilityCheck:
+    """Tests for semantic availability checking."""
+
+    def test_check_semantic_available(self):
+        """Test check_semantic_available function."""
+        available, error = check_semantic_available()
+        assert available is True
+        assert error is None
+
+    def test_semantic_available_flag(self):
+        """Test SEMANTIC_AVAILABLE flag is True when deps installed."""
+        assert SEMANTIC_AVAILABLE is True