In this paper, an adaptive genetic algorithm (AGA) which can adaptively select crossover probability and mutation probability is presented to optimize the fuzzy control system for the space intelligent truss structure. Firstly, considering the electromechanical coupling characteristic of piezoelectric active bars, the finite element dynamic equations of the system are established. Secondly, the optimization goal is the minimum of axial displacement difference of intelligent truss active bars. An adaptive genetic algorithm is applied to optimize fuzzy control rules to improve the control effect of fuzzy controller of intelligent truss structure. To demonstrate the effectiveness of this method, the model of space intelligent truss structure is established by the Matlab/Simulink simulation, and the control results of fuzzy rules before and after optimization are compared. Simulation results show that after the optimization with adaptive genetic algorithm, the intelligent truss vibration damping rate has also been accelerated, and the steady-state error of fuzzy control are effectively eliminated.