When the traditional multi-motor speed synchronous control strategy is applied to the vacuum pump system, it is prone to the drawbacks of large synchronization error. In this paper, a simplified mathematical model of the motor for a vacuum pump is established and the transfer function is introduced, which weakens the multivariable, strong coupling and nonlinear characteristics of the motor system. According to the basic principle of the relative coupling control strategy, the neural network Proportion Integration Differentiation (PID) is introduced as a speed compensator in this system. It effectively improves the synchronization and anti-interference ability of the multi motor.