The safe operation of the airport is the cornerstone of civil aviation safety. An airport operation risk assessment system was constructed to assess the safety risks of airport operation. It also identifies and eliminates the risk factors and safety hazards in advance. Firstly, using the theory of man-machine-environment-management, the airport operation safety evaluation system was established. Then, using the analytic hierarchy process and the entropy method, the data obtained from the two methods was analyzed and compared, and the weighted comprehensive calculation was carried out to obtain the comprehensive weight of each indicator. Finally, the risk assessment method established in the paper was used to conduct a risk assessment test of the operation of Yuncheng Yanhu Airport. The test results show that the research method in this paper is feasible and effective.