diff --git a/codex-lens-v2/scripts/test_small_e2e.py b/codex-lens-v2/scripts/test_small_e2e.py
new file mode 100644
index 00000000..1e6b3b64
--- /dev/null
+++ b/codex-lens-v2/scripts/test_small_e2e.py
@@ -0,0 +1,193 @@
+"""
+Small-folder end-to-end test: index tests/ directory (~10 files) and verify
+indexing pipeline + all search features work correctly.
+
+Usage: python scripts/test_small_e2e.py
+"""
+import sys
+import time
+from pathlib import Path
+
+sys.path.insert(0, str(Path(__file__).parent.parent / "src"))
+
+import numpy as np
+from codexlens.config import Config
+from codexlens.core.factory import create_ann_index, create_binary_index
+from codexlens.embed.local import FastEmbedEmbedder
+from codexlens.indexing import IndexingPipeline
+from codexlens.rerank.base import BaseReranker
+from codexlens.search.fts import FTSEngine
+from codexlens.search.pipeline import SearchPipeline
+
+
+class KeywordReranker(BaseReranker):
+    """Simple keyword-overlap reranker for testing without network."""
+    def score_pairs(self, query: str, documents: list[str]) -> list[float]:
+        q_words = set(query.lower().split())
+        scores = []
+        for doc in documents:
+            d_words = set(doc.lower().split())
+            overlap = len(q_words & d_words)
+            scores.append(float(overlap) / max(len(q_words), 1))
+        return scores
+
+PROJECT = Path(__file__).parent.parent
+TARGET_DIR = PROJECT / "src" / "codexlens"  # ~21 .py files, small
+INDEX_DIR = PROJECT / ".test_index_cache"
+EXTENSIONS = {".py"}
+
+passed = 0
+failed = 0
+
+
+def check(name: str, condition: bool, detail: str = ""):
+    global passed, failed
+    if condition:
+        passed += 1
+        print(f"  [PASS] {name}")
+    else:
+        failed += 1
+        print(f"  [FAIL] {name} — {detail}")
+
+
+def main():
+    global passed, failed
+    INDEX_DIR.mkdir(parents=True, exist_ok=True)
+
+    config = Config(
+        embed_model="BAAI/bge-small-en-v1.5",
+        embed_dim=384,
+        embed_batch_size=32,
+        hnsw_ef=100,
+        hnsw_M=16,
+        binary_top_k=100,
+        ann_top_k=30,
+        reranker_model="BAAI/bge-reranker-base",
+        reranker_top_k=10,
+    )
+
+    files = [p for p in TARGET_DIR.rglob("*.py") if p.is_file()]
+    print(f"Target: {TARGET_DIR} ({len(files)} .py files)\n")
+
+    # ── 1. Test IndexingPipeline ──────────────────────────────
+    print("=== 1. IndexingPipeline (parallel) ===")
+    embedder = FastEmbedEmbedder(config)
+    binary_store = create_binary_index(INDEX_DIR, config.embed_dim, config)
+    ann_index = create_ann_index(INDEX_DIR, config.embed_dim, config)
+    fts = FTSEngine(":memory:")
+
+    t0 = time.time()
+    stats = IndexingPipeline(
+        embedder=embedder,
+        binary_store=binary_store,
+        ann_index=ann_index,
+        fts=fts,
+        config=config,
+    ).index_files(files, root=TARGET_DIR, max_chunk_chars=800, chunk_overlap=100)
+    elapsed = time.time() - t0
+
+    check("files_processed > 0", stats.files_processed > 0, f"got {stats.files_processed}")
+    check("chunks_created > 0", stats.chunks_created > 0, f"got {stats.chunks_created}")
+    check("indexing completed", elapsed < 120, f"took {elapsed:.1f}s")
+    print(f"  Stats: {stats.files_processed} files, {stats.chunks_created} chunks, {elapsed:.1f}s\n")
+
+    # ── 2. Test BinaryStore (pre-allocated, coarse search) ────
+    print("=== 2. BinaryStore coarse search ===")
+    q_vec = embedder.embed_single("def search")
+    b_ids, b_dists = binary_store.coarse_search(q_vec, top_k=10)
+    check("binary returns results", len(b_ids) > 0, f"got {len(b_ids)}")
+    check("binary ids are ints", all(isinstance(int(i), int) for i in b_ids))
+    print(f"  Top 5 binary IDs: {b_ids[:5]}\n")
+
+    # ── 3. Test ANNIndex (fine search) ────────────────────────
+    print("=== 3. ANNIndex fine search ===")
+    a_ids, a_dists = ann_index.fine_search(q_vec, top_k=10)
+    check("ann returns results", len(a_ids) > 0, f"got {len(a_ids)}")
+    check("ann scores are floats", all(isinstance(float(d), float) for d in a_dists))
+    print(f"  Top 5 ANN IDs: {a_ids[:5]}\n")
+
+    # ── 4. Test FTSEngine (exact + fuzzy) ─────────────────────
+    print("=== 4. FTSEngine search ===")
+    exact = fts.exact_search("def search", top_k=5)
+    fuzzy = fts.fuzzy_search("embedd", top_k=5)
+    check("exact search returns results", len(exact) > 0, f"got {len(exact)}")
+    check("fuzzy search returns results", len(fuzzy) > 0, f"got {len(fuzzy)}")
+    print(f"  Exact hits: {len(exact)}, Fuzzy hits: {len(fuzzy)}\n")
+
+    # ── 5. Test SearchPipeline (parallel FTS||vector + fusion + rerank) ──
+    print("=== 5. SearchPipeline (full pipeline) ===")
+    reranker = KeywordReranker()
+    search = SearchPipeline(
+        embedder=embedder,
+        binary_store=binary_store,
+        ann_index=ann_index,
+        reranker=reranker,
+        fts=fts,
+        config=config,
+    )
+
+    queries = [
+        ("def embed_single", "code symbol search"),
+        ("search pipeline fusion", "natural language search"),
+        ("Config dataclass", "exact match search"),
+        ("binary store hamming", "domain-specific search"),
+        ("", "empty query handling"),
+    ]
+
+    for query, desc in queries:
+        t0 = time.time()
+        results = search.search(query, top_k=5)
+        ms = (time.time() - t0) * 1000
+
+        if query == "":
+            check(f"{desc}: no crash", isinstance(results, list))
+        else:
+            check(f"{desc}: returns results", len(results) > 0, f"'{query}' got 0 results")
+            if results:
+                check(f"{desc}: has scores", all(r.score >= 0 for r in results))
+                check(f"{desc}: has paths", all(r.path for r in results))
+                check(f"{desc}: respects top_k", len(results) <= 5)
+                print(f"    Top result: [{results[0].score:.3f}] {results[0].path}")
+        print(f"    Latency: {ms:.0f}ms")
+
+    # ── 6. Test result quality (sanity) ───────────────────────
+    print("\n=== 6. Result quality sanity checks ===")
+    r1 = search.search("BinaryStore add coarse_search", top_k=3)
+    if r1:
+        paths = [r.path for r in r1]
+        check("BinaryStore query -> binary.py in results",
+              any("binary" in p for p in paths),
+              f"got paths: {paths}")
+
+    r2 = search.search("FTSEngine exact_search fuzzy_search", top_k=3)
+    if r2:
+        paths = [r.path for r in r2]
+        check("FTSEngine query -> fts.py in results",
+              any("fts" in p for p in paths),
+              f"got paths: {paths}")
+
+    r3 = search.search("IndexingPipeline parallel queue", top_k=3)
+    if r3:
+        paths = [r.path for r in r3]
+        check("Pipeline query -> pipeline in results",
+              any("pipeline" in p or "indexing" in p for p in paths),
+              f"got paths: {paths}")
+
+    # ── Summary ───────────────────────────────────────────────
+    print(f"\n{'=' * 50}")
+    print(f"Results: {passed} passed, {failed} failed, {passed + failed} total")
+    if failed == 0:
+        print("ALL TESTS PASSED")
+    else:
+        print(f"WARNING: {failed} test(s) failed")
+    print(f"{'=' * 50}")
+
+    # Cleanup
+    import shutil
+    shutil.rmtree(INDEX_DIR, ignore_errors=True)
+
+    return 0 if failed == 0 else 1
+
+
+if __name__ == "__main__":
+    sys.exit(main())
diff --git a/codex-lens-v2/src/codexlens/search/pipeline.py b/codex-lens-v2/src/codexlens/search/pipeline.py
index 21e2810e..d3eb51e4 100644
--- a/codex-lens-v2/src/codexlens/search/pipeline.py
+++ b/codex-lens-v2/src/codexlens/search/pipeline.py
@@ -100,7 +100,7 @@ class SearchPipeline:
         weights = get_adaptive_weights(intent, cfg.fusion_weights)
 
         # 2. Embed query
-        query_vec = self._embedder.embed([query])[0]
+        query_vec = self._embedder.embed_single(query)
 
         # 3. Parallel vector + FTS search
         vector_results: list[tuple[int, float]] = []