In recent years, the role of naval ship power has become increasingly prominent in regional conflicts and military operations worldwide, and the powerful capabilities demonstrated by naval forces have also been valued by countries around the world. While naval forces are frequently deployed to carry out various tasks, the intensity of equipment wear and tear on ships is also significantly increasing, posing a huge challenge to the maintenance and support capabilities of ship equipment. In the actual process of ship equipment maintenance, a series of risk factors such as cost, schedule, and quality will have a significant impact on the entire ship maintenance project, and even affect the success or failure of the entire project. This article first decomposes the project process of ship maintenance projects, further analyzes the various risk factors of ship maintenance projects based on the project decomposition situation, and then distinguishes the overall project, project process, and project risk factors to establish an intelligent agent group model for simulation analysis. Through the above simulation analysis, we will conduct in-depth research on the specific impact of project risks on ship maintenance projects, and analyze and verify the positive role and practical significance of project risk management in project risk control and project efficiency improvement. In the process of the above research content, methods and measures for risk management of ship maintenance projects are proposed, providing scientific and efficient risk management suggestions for such projects, improving the scientific management efficiency of ship maintenance projects, and contributing to the improvement of the quality and efficiency of project management.