fix: address follow-up PR review findings (FU2-QUAL-001/002/003)

FU2-QUAL-001 (MEDIUM): Unconditionally restore sys.modules in finally block
- Changed conditional restoration to unconditional to ensure broken modules
  from failed exec_module() calls don't persist in sys.modules

FU2-QUAL-002 (MEDIUM): Remove test dependencies from production requirements
- Removed pytest>=8.0.0 and pytest-cov>=5.0.0 from apps/backend/requirements.txt
- Test dependencies already exist in tests/requirements-test.txt

FU2-QUAL-003 (LOW): Add pagination to GitLab notes API call
- Added pagination loop to fetch all issue notes before filtering
- Prevents selected notes from being silently dropped when they're beyond
  the default 20-item page limit

apps/backend/requirements.txt

@@ -31,9 +31,5 @@ google-generativeai>=0.8.0
 # Pydantic for structured output schemas
 pydantic>=2.0.0
 
-# Testing
-pytest>=8.0.0
-pytest-cov>=5.0.0
-
 # Error tracking (optional - requires SENTRY_DSN environment variable)
 sentry-sdk>=2.0.0

apps/frontend/src/main/ipc-handlers/gitlab/investigation-handlers.ts

@@ -109,14 +109,33 @@ export function registerInvestigateIssue(
           `/projects/${encodedProject}/issues/${issueIid}`
         ) as GitLabAPIIssue;
 
-        // Fetch notes if any selected
+        // Fetch notes if any selected (with pagination to get all notes)
         let filteredNotes: Array<{ body: string; author: { username: string } }> = [];
         if (selectedNoteIds && selectedNoteIds.length > 0) {
-          const allNotes = await gitlabFetch(
-            config.token,
-            config.instanceUrl,
-            `/projects/${encodedProject}/issues/${issueIid}/notes`
-          ) as Array<{ id: number; body: string; author: { username: string } }>;
+          // Fetch all notes with pagination (GitLab defaults to 20 per page)
+          const allNotes: Array<{ id: number; body: string; author: { username: string } }> = [];
+          let page = 1;
+          const perPage = 100;
+          let hasMore = true;
+
+          while (hasMore) {
+            const notesPage = await gitlabFetch(
+              config.token,
+              config.instanceUrl,
+              `/projects/${encodedProject}/issues/${issueIid}/notes?page=${page}&per_page=${perPage}`
+            ) as Array<{ id: number; body: string; author: { username: string } }>;
+
+            if (notesPage.length === 0) {
+              hasMore = false;
+            } else {
+              allNotes.push(...notesPage);
+              if (notesPage.length < perPage) {
+                hasMore = false;
+              } else {
+                page++;
+              }
+            }
+          }
 
           // Filter notes based on selection
           filteredNotes = allNotes.filter(note => selectedNoteIds.includes(note.id));

tests/test_cli_build_commands.py

@@ -2594,7 +2594,6 @@ class TestBuildCommandsModuleImport:
         finally:
             # Always restore original state, even if an exception occurred
             sys.path[:] = original_path
-            # Restore saved modules (if they still exist in sys.modules, skip to avoid conflicts)
+            # Unconditionally restore saved modules (overwrite to ensure clean state after failures)
             for mod_name, mod_obj in original_modules.items():
-                if mod_name not in sys.modules:
-                    sys.modules[mod_name] = mod_obj
+                sys.modules[mod_name] = mod_obj