Most of rotating machineries supported by contact bearing accompany lowering efficiency, vibration and wear. Moreover, because of vibration, which is occurred in rotating shaft, they have the limits of driving speed and precision. The rotor system has parametric variations or external disturbances such as mass unbalance variations in long operation. Therefore, it is necessary to research about magnetic bearing, which is able to support the shaft without mechanical contact and to control rotor vibration without being affected by external disturbances or parametric changes. Magnetic bearing system in the paper is composed of position sensor, digital controller, actuating amplifier and electromagnet. This paper applied the robust control method using quantitative feedback theory (QFT) to control the magnetic bearing. It also proposed design skill of optimal controller, in case the system has structured uncertainty, unstructured uncertainty and disturbance. Reduction of vibration is verified at critical rotating speed even external disturbance exists. Unbalance response, a serious problem in rotating machinery, is improved by magnetic bearing using QFT algorithm.