Safely managing files when working with AI-generated code is a critical challenge for modern development workflows. Daytona's filesystem API provides secure file management in sandbox environments, allowing developers to create, modify, and execute files without compromising system security, while maintaining full control over their development environment. The API offers basic file operations such as creating and reading files, managing project structures, searching for specific content, and replacing it across files, as well as working with file permissions. Best practices focus on cross-platform compatibility and error handling, including using binary mode when uploading files to avoid encoding issues. By leveraging these capabilities, developers can build robust systems that safely manage files within AI sandbox environments, while maintaining full control over the development workflow.