Brushless DC motors already show high performance in many applications and will be highly expected in the future. However, the most used control methods is vector control method, which is based on coordinate transform and requires the assumption that the three phases of the motor are symmetrical. In order to improve the performance of the Brushless DC motors, one thing should be considered, the real motors always have differences between phase and phase caused by machining the accuracy of size, the characteristics of both magnetic and electrical. It will be useful to find some control methods that can be treated with the asymmetrical three-phase motors. In the paper, we will propose a method that uses the independent phase control, proposed by the authors to treat the motors that contain asymmetrical characteristics. First, a simple mathematical model of asymmetric three-phase brushless DC motors is proposed, then the proposed method for controlling each phase independently is applied to such mathematical model of a motor including some asymmetries. By comparing the vector control method with the proposed method, it will be clarified that the improvement by the proposed method is seen, and the effectiveness is confirmed.