Fix CLI help safety and test config discovery

[PennyroyalTea]

Summary

• restore Commander help handling so --help exits before command actions run
• add recursive test config discovery for tests push via --config-dir
• add e2e coverage for help safety and folder-discovered test configs

Verification

• npm run build
• npm run lint (passes with existing warnings in unrelated test files)
• npm run test:e2e -- --runTestsByPath src/tests/cli.e2e.test.ts --testNamePattern "help|tests push command|push-tools command"
• npm test -- --runTestsByPath src/tests/tests/test-commands.integration.test.ts