In view of the threat to the anti-ship missile operation brought by the increasingly enhanced interception and confrontation capability of the enemy ship target, the intelligent anti-ship missile assault group cooperative operation method is studied, and the penetration probability of anti-ship missile assault group operation under several cooperative operation methods is obtained. In this paper, the confrontation environment of anti-ship missile assault group operation is systematically described, the structure of intelligent anti-ship missile assault group operation system is analyzed, and the structure, function and main operation process of intelligent anti-ship missile attack group are given; 3 kinds of combat cooperation methods, including multi-guidance system cooperation, multi-wave attack cooperation and external combat support cooperation, are analyzed and calculated based on hypothetical data, and the effectiveness of the 3 cooperative combat methods is proved. The results show that the method can provide reference for the operational use of anti-ship missile weapon system, and has important military value and significance.