In this research, Generalized Predictive control (GPC) is proposed for the control of a stabilizing loop from a two axis gimbal seeker. In fact, there are some views about using GPC type controller which are two folds. First, it drives the stabilization loops that are made by a DC motor, Rate Gyro, inertia and cross coupling unit in between two channels using the predictive model type controller. Second, the theory is to excavate the results of flight simulation on the efficiency of two-axis gimbal seeker. The simulations, based on different scenarios, are valuated for the proficiency of the designed system considering the dynamic mass imbalance and the cross-coupling in between two channels and the flight simulation. The flight simulation results are explained the accuracy of the designed system with predictive control in opposite of conventional PI controller. For example, the simulation results in altitude of 2km show the suggested system in comparison with conventional PI controller improves miss-distance and flight time 11.98% and 1.5% respectively. Moreover, the suggested system in maximum control signal is 72.61%, minimum control signal is 1.55% and final time is 80.43% (control effort parameter), which is better than PI type controller.