The automation of scientific research through large language models (LLMs) presents significant opportunities but faces critical challenges in knowledge synthesis and quality assurance. We introduce Feedback-Refined Agent Methodology (FRAME), a novel framework that enhances medical paper generation through iterative refinement and structured feedback. Our approach comprises three key innovations: (1) A structured dataset construction method that decomposes 4,287 medical papers into essential research components through iterative refinement; (2) A tripartite architecture integrating Generator, Evaluator, and Reflector agents that progressively improve content quality through metric-driven feedback; and (3) A comprehensive evaluation framework that combines statistical metrics with human-grounded benchmarks. Experimental results demonstrate FRAME’s effectiveness, achieving significant improvements over conventional approaches across multiple models (9.91% average gain with DeepSeek V3, comparable improvements with GPT-4o Mini) and evaluation dimensions. Human evaluation confirms that FRAME-generated papers achieve quality comparable to human-authored works, with particular strength in synthesizing future research directions. The results demonstrated our work could efficiently assist medical research by building a robust foundation for automated medical research paper generation while maintaining rigorous academic standards.