The stator modal analysis was an important segment of studying the electromagnetic vibration and noise of permanent magnet synchronous mortor (PMSM), and the accurate prediction of the natural frequency of stator was the basis of suppressing the electromagnetic vibration and noise. Firstly, the main factors affecting the natural frequency of stator were analyzed by the analytical method. Secondly, the finite element simulation models of each part of the stator system were established, and the influences of the winding, case and end cover on the stator’s natural frequency were studied through finite element simulation and related data processing and analysis. The results showed that when the equivalent elastic modulus of the winding was lower than a critical value, the stator’s natural frequency would be reduced; while when the equivalent elastic modulus of the winding was higher than this critical value, the stator’s natural frequency would be increased. Both the case and the end cover could greatly increase the natural frequency of the stator.