Taking Ganlu and Dangbei polders in the western polder area of the Wangyu River as the study area, a hydrodynamic and water quality coupling model was constructed, and appropriate parameters of hydrodynamic, water quality, and economic costs were selected to construct a multi-objective evaluation indicator system for flowing water dispatch. The weights of the indicators are determined through a combination of the analytic hierarchy process (AHP) and entropy weight method. The optimal flowing water dispatch scheme for each individual polder is determined, and the effectiveness of these schemes are compared with the jointly coordinated flowing water dispatch scheme for the polder area. The results show that the multi-objective evaluation index system effectively determines the optimal flowing water dispatch scheme. For Ganlu Polder, the optimal scheme involves jointly diverting water from the Chenjiajiao Sluice and Ganlugang Sluice, with the Xujiabang Sluice discharging at a flow rate of 6 m³/s. For Dangbei Polder, the optimal scheme involves diverting water from the Huangtang River Sluice and Wuxing River North Sluice, with the Zhuqiao River Sluice and Wuxing River Sluice jointly discharging at a flow rate of 9 m³/s. Compared with individual flowing water dispatch schemes, the jointly coordinated flowing water dispatch for both polders exhibits superior effectiveness in ensuring smooth water flow.