The invention relates to an optimum design method of a hydraulic ship lifter valve system with an anti-vibration performance. In order to reduce the vibration of the hydraulic ship lifter water delivery valve system generated under a high water head condition, the optimum design method provided by the invention is characterized by combining manners of 'optimizing a spatial arrangement type of three valves and improving a valve back pipeline shape', changing the original parallel arrangement of the three valves located at the same height into the spatial arrangement in a shape of the Chinese character 'Pin', and meanwhile, replacing a valve back multi-branch pipe joining section with an anti-vibration body with a 'cylindrical' shape, so that a valve back low-pressure vortex area is eliminated, the pulsating pressure is reduced, the flow velocity is reduced, and thus the aim of vibration resistance is achieved. According to the optimum design method of the hydraulic ship lifter valve system with the anti-vibration performance provided by the invention, the optimally designed anti-vibration body is provided with a circular flow section, so that the problem of stress concentration of vertex angles of a square structure is avoided, and design and construction can be carried out conveniently. A model test proves that the pulsating pressure of a valve back water flow and the vibration amplitude of a side wall of a pipeline can be effectively reduced, the valve back multi-branch pipe shape is simplified, and the safe operation of the hydraulic ship lifter water delivery valve system is ensured.