This study suggests a new type shaft generating system driven by hydrostatic transmission suitable for small size vessels. In this system, the hydraulic motor speed is controlled by displacement adjustment using a 3-way high speed on/off valve. The 3-way high speed valve is operated by PWM control signal. In this study, a digital robust servo control algorithm is applied to the controller design of the system. By experiments and numerical computations, the frequency variation characteristics of the generating system under various disturbances are investigated. Conclusively, it is said that the shaft generating system proposed in this study shows excellent control performances.