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Aiming at the cooperation of Agent in multi-Agent system, the game theory was introduced to the cooperation of Agent, and the multi-Agent cooperation mechanism based on game theory was established. The common multi-Agent cooperation model was analyzed, and an improved benevolent function was given, as well as the specific process of cooperation strategies and cooperation algorithms. At last, the cooperation mechanism of multi-Agent system was tested through the pursuit-evasion problem. The results of simulated experiments indicated that the multi-Agent cooperation mechanism based on game theory can be effectively used to cooperation of multi-Agent.