Register accuracy is an important index to evaluate the quality of electronic products printed by gravure printed electronic equipment. However, the complex relationships of multilayer register system make the problem of decoupling control difficult to be solved, which has limited the improvement of register accuracy for the gravure printed electronic equipment. Therefore, this paper presents an integrated decoupling control strategy based on feedforward control and active disturbance rejection control (ADRC) to solve the strong coupling, strong interference, and time-delay problems of multilayer register system. First of all, a coupling and nonlinear model is established according to the multilayer register working principle in gravure printing, and then a linear model of the register system is derived based on the perturbation method. Secondly, according to the linear model, a decoupling control strategy is designed based on feedforward control and ADRC for the multilayer register system. Finally, the results of computer simulation show that the proposed control methodology can realize a decoupling control and has good control performance for multilayer register system.