End-to-end test cases pose several challenges. They require a comprehensive understanding of the entire system and its dependencies, making test setup complex. Maintenance becomes cumbersome as system changes can affect multiple test cases. End-to-end tests can be time-consuming to execute and prone to failure due to external dependencies. They may also lack fine-grained visibility into specific components, making it difficult to pinpoint issues. Overall, the challenges lie in test setup, maintenance, execution time, dependencies, and granularity of analysis.