Abstract: This paper derives four government-control modes from the interaction of government property-right boundary, administrative boundary and enterprise property-right boundary. Through the construction of a multi-agent model of government-enterprise interaction and simulation to test the impact of the four government-control models on corporate innovation activities, the results show that: (1) under the two-way separation mode, innovation investment is high and innovation performance is good; (2) by comparing the "administrative-fixed effect" and the "property-fixed effect", the administrative destructive power under the two-way-centralized control mode is stronger, the adaptability of enterprises lags behind, and there is "innovation inertia"; (3) Under the one-way property-right management mode, with the increase of parameter , innovation input is insufficient and innovation performance is low; (4) Under the one-way administrative management mode, with the enhancement of parameter , innovation investment and innovation performance are decreasing, and the initiative of enterprises' independent innovation is not high. Finally, aiming at different government-control modes, proposals for promoting corporate innovation activities are proposed.