A scheme for the motion compensation of imaging spectrometers by using a scanning mirror drive system consisting of a step motor,a harmonic reducer and a obsolute encoder was introduced.The rationality of selected five-phase hybrid stepping motor in the system was illustrated. On the particularity of the five-phase hybrid stepping motor, its drive technology and control methods were studied. Firstly, the special requirements of the scanning mirror and the drive method for step motor were pointed out. Then, for the two operating conditions which scanning mirror ran in low-speed and in high-speed to the initial position, a new drive method based on the new pentagon winding connection was proposed. Furthermore, the influence of the drive method on the enhancing performation of scanning system was analyzed. Finally, the related equipment and appropriate measuring methods were used to achieve the precision of scanning mirror motion. Obtained results show that the Root Mean Square Error(RMSE) of angular velcity is less than 5.5% in scanning mirror at low speed of 0.1~0.5 (°)/s in uniform speed motion and given tracking compensation curves. The imaging spectrometer can basically meets the requirements of scanning applications.