The paper aims to propose a multi-layer register control system that integrates fuzzy control and PID (Pro-portion-Integral-Differential) control to improve the printing accuracy and consistency of gravure printed electronic equipment. A four-layer nonlinear and coupling model was established according to the multi-layer register system working principle and the two-layer register system model to effectively integrate fuzzy control and PID control to design a fuzzy PID control controller for the four-layer register system, and then, the simulation study of the controller was executed in the Simulink. The results of computer simulation showed that the proposed control methodology well restrained the register errors caused by tension fluctuation, speed interference and web characteristic change. The proposed multi-layer register controller is able to realize a high precision control for the multi-layer register system. It has better control performance than PID controller.