In order to ensure the safety of space flight, the design of communication and navigation frequency interference monitoring system for space flight safety system is put forward, which effectively solves the problems of low monitoring efficiency and low accuracy in the traditional monitoring system. Design of communication and navigation frequency interference monitoring system. Based on the overall system architecture design, the digital receiver is reconfigured and the monitoring channel is improved to improve the hardware of the system; the frequency interference is classified, and different interference monitoring methods are developed to complete the design of frequency interference monitoring system. The experimental results show that the system has high monitoring efficiency and high accuracy.