The control system based on multi-unmanned aerial vehicle (UAV) cooperative strategic confrontation includes a management module, a UAV formation module, a situation assessment module, a decision-making module, and a cooperative mission assigning module of both sides in a confrontation. The management module is configured to store state information acquired by the UAV formation module. The UAV formation module is configured to acquire state information of UAVs and execute a control instruction. The situation assessment module is configured to acquire situation assessment information according to the state information. The decision-making module is configured to acquire a countermeasure based on the situation assessment information. The cooperative mission assigning module is configured to generate control instructions for the UAVs based on the countermeasure and in combination with a confrontation target and an optimal situation assessment value.