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Hopper dredger's pump pipeline model is a complex and nonlinear dynamic model, and there are lots of parameters that can affect the model's accuracy. In order to accurately predict the next moment's pump speed and improve the dredging efficiency based on current construction conditions and the optimal flow rate, the genetic BP neural network prediction model is proposed. First, genetic algorithm was used to optimize the initial weights and thresholds of BP neural network, and then the BP neural network is trained according to the optimal value. In order to verify the validity of the method, the genetic BP neural network and the real pump data were compared. The simulation results show that the genetic BP neural network has a good fitting ability and good global search ability. Genetic BP neural network can accurately predict the speed and provide recommendations for the construction personnel, who can adjust pump speed and improve the efficiency of dredging.