diff --git a/src/cli.ts b/src/cli.ts
index 79ad6bc..97105a3 100644
--- a/src/cli.ts
+++ b/src/cli.ts
@@ -5,7 +5,6 @@ import { dirname, resolve } from 'node:path'
 import process from 'node:process'
 import { fileURLToPath } from 'node:url'
 
-// TODO(integration): replace stub when sibling modules land
 import { clearIndexCache, loadOrBuildIndex } from './indexing/cache.ts'
 import { CspIndex } from './indexing/index.ts'
 import { serve } from './mcp/server.ts'
diff --git a/src/indexing/index.ts b/src/indexing/index.ts
index f051b80..6dc601a 100644
--- a/src/indexing/index.ts
+++ b/src/indexing/index.ts
@@ -4,13 +4,14 @@
 // indexing units (model loading + createIndexFromPath) into a single object
 // that the CLI and MCP server drive.
 //
-// Wiring status:
-//   - fromPath: implemented (this task, T003).
-//   - fromGit:  stub (T005).
-//   - search / findRelated: sync delegation to search.ts (T004).
-//   - save: implemented (this task, T006) — writes manifest + chunks + bm25 + dense.
-//   - loadFromDisk: throwing stub (real persistence in T007); declared here so
-//     the Phase A/B branch type-checks (cli.ts references CspIndex.loadFromDisk).
+// Construction:
+//   - fromPath:      index a local directory.
+//   - fromGit:       shallow-clone a git URL into a temp dir, index it via
+//                    fromPath, then re-root the index at the URL.
+//   - loadFromDisk:  reconstruct a saved index from its on-disk artifacts.
+// Operations:
+//   - search / findRelated: delegate to search.ts over the in-memory index.
+//   - save:          persist the index (manifest + chunks + bm25 + dense vectors).
 
 import type { Chunk, ContentType, IndexStats, SearchResult } from '../types.ts'
 import type { Model } from './dense.ts'
diff --git a/src/types.ts b/src/types.ts
index 71b60ee..9138704 100644
--- a/src/types.ts
+++ b/src/types.ts
@@ -1,5 +1,4 @@
 // Port of src/semble/types.py
-// Minimal stub — full implementation lands in Unit 1.
 
 /** Call type for token-savings tracking. */
 export enum CallType {
diff --git a/src/utils.ts b/src/utils.ts
index 28f17c7..cbc22d9 100644
--- a/src/utils.ts
+++ b/src/utils.ts
@@ -1,5 +1,4 @@
 // Port of src/semble/utils.py
-// Minimal stub — full implementation lands in Unit 3.
 
 import type { Chunk, SearchResult } from './types.ts'