fix: resolve CI/CD package filtering issues

- Fix pyproject.toml package include/exclude to only include config_auditor package
- Add MANIFEST.in to exclude unrelated directories from sdist distribution

app/MANIFEST.in

@@ -0,0 +1,13 @@
+include README.md
+include LICENSE
+include pyproject.toml
+include setup.py
+
+exclude tests/*
+exclude fixtures/*
+exclude database/*
+exclude depnav/*
+exclude gitignore_generator/*
+exclude mcp_servers/*
+exclude orchestrator/*
+exclude web/*