Fix CI test failures (bd-1231)

- Always recompute content_hash in importer to avoid stale hashes from JSONL
- Add .gitignore to test repos to prevent database files from being tracked
- Fix daemon auto-import test to use correct RPC operation ('show' not 'get_issue')
- Set last_import_time metadata in test helper to enable staleness check
- Add filesystem settle delay after git pull in tests

Root cause: CloseIssue updates status but not content_hash, so importer
thought issues were unchanged. Always recomputing content_hash fixes this.

Amp-Thread-ID: https://ampcode.com/threads/T-63ef3a7d-8efe-472d-97ed-6ac95bd8318b
Co-authored-by: Amp <amp@ampcode.com>

cmd/bd/daemon_autoimport_test.go

@@ -131,6 +131,9 @@ func TestDaemonAutoImportAfterGitPull(t *testing.T) {
 		// Agent B does git pull (updates JSONL on disk)
 		runGitCmd(t, clone2Dir, "pull")
 		
+		// Wait for filesystem to settle after git operations
+		time.Sleep(50 * time.Millisecond)
+		
 		// Start daemon server in clone2
 		socketPath := filepath.Join(clone2BeadsDir, "bd.sock")
 		os.Remove(socketPath) // Ensure clean state
@@ -329,6 +332,9 @@ func TestDaemonAutoImportDataCorruption(t *testing.T) {
 	// 2. Agent B does git pull (JSONL updated on disk)
 	runGitCmd(t, clone2Dir, "pull")
 	
+	// Wait for filesystem to settle after git operations
+	time.Sleep(50 * time.Millisecond)
+	
 	// 3. Agent B daemon exports STALE data (if auto-import doesn't work)
 	// This would overwrite Agent A's closure with old "open" status
 	
@@ -364,7 +370,7 @@ func TestDaemonAutoImportDataCorruption(t *testing.T) {
 	
 	client.SetDatabasePath(clone2DBPath)
 	
-	resp, err := client.Execute("get_issue", map[string]string{"id": issueID})
+	resp, err := client.Execute("show", map[string]string{"id": issueID})
 	if err != nil {
 		t.Fatalf("Failed to get issue: %v", err)
 	}

cmd/bd/git_sync_test.go

@@ -211,6 +211,18 @@ func configureGit(t *testing.T, dir string) {
 	runGitCmd(t, dir, "config", "user.email", "test@example.com")
 	runGitCmd(t, dir, "config", "user.name", "Test User")
 	runGitCmd(t, dir, "config", "pull.rebase", "false")
+	
+	// Create .gitignore to prevent test database files from being tracked
+	gitignorePath := filepath.Join(dir, ".gitignore")
+	gitignoreContent := `# Test database files
+*.db
+*.db-journal
+*.db-wal
+*.db-shm
+`
+	if err := os.WriteFile(gitignorePath, []byte(gitignoreContent), 0644); err != nil {
+		t.Fatalf("Failed to create .gitignore: %v", err)
+	}
 }
 
 func exportIssuesToJSONL(ctx context.Context, store *sqlite.SQLiteStorage, jsonlPath string) error {
@@ -284,6 +296,11 @@ func importJSONLToStore(ctx context.Context, store *sqlite.SQLiteStorage, dbPath
 		}
 	}
 	
+	// Set last_import_time metadata so staleness check works
+	if err := store.SetMetadata(ctx, "last_import_time", time.Now().Format(time.RFC3339)); err != nil {
+		return err
+	}
+	
 	return nil
 }