Repetitive controllers are widely used in rotor systems of magnetically suspended control moment gyro, which are responsible for suppressing harmonic current because of sensor runout and mass imbalance of the rotor. However, the rotation frequency of the rotor is not constant in industrial applications, and it is likely to fluctuate around the rotation frequency, which greatly affects the suppression effect of the repetitive controller on harmonic current. This article proposes a new repetitive control method with strong frequency robustness, which still has high suppression accuracy when the rotation frequency is fluctuant. This method is simulated and verified on the magnetically suspended rotor system, which has achieved better results than previous research.