To train a large number of innovative talents, we should have a good mechanism for the education of postgraduates. The research on the operating mechanism of the graduate education depended on the training program, the academic environment and the incentive mechanism of subsystems. Through a lot of investigation, this paper found the solving ways which included that the basic knowledge and the practice, application courses should be paid attention, the structure of the curriculum comprehensive assessment system should ensure the quality of the course teaching, etc.