CSRF protection in Jenkins works by requiring a special token called a crumb in POST requests. When Jenkins receives a request, it first checks if the CSRF token is present. If missing, Jenkins rejects the request immediately. If present, Jenkins compares the token with the expected server token. If they match, the request is accepted and processed, such as triggering a job build. If the token does not match, Jenkins rejects the request to prevent unauthorized actions. This mechanism protects Jenkins from cross-site request forgery attacks by ensuring only legitimate requests with valid tokens are processed.