In order to improve the cleaning rate of granular agricultural products, a continuous nonsubmerged water jet vibration cleaning scheme was proposed. According to the force analysis of particles, the motion equations of the particles were derived. The related parameters affecting the particle motion were analyzed, and the impact force of water jet and the intergranular contact force of the particles were studied briefly. Then, the FLUENT-EDEM coupling simulation model of the cleaning process was constructed by using the method of computational fluid mechanics and discrete element method. The dynamic cleaning process of the granular agricultural products washing machine was simulated, and the cleaning rate of the agricultural products was calculated. On the premise of the given amplitude, nozzle type and cleaning target distance, the influence of vibration frequency and initial angle, nozzle inlet pressure and direction angle on washing rate was discussed by the orthogonal analysis. The results showed that the inlet pressure and direction angle of the nozzle had the greatest effect on the cleaning rate, while the vibration frequency and initial angle of the vibration groove had less influence on the cleaning rate. When the vibration frequency of the vibrating groove was 3Hz, the inlet pressure was 0.7MPa and the angle of water jet was π/3, the particles had the highest cleaning rate. Finally, the cleaning test platform system was designed and manufactured, and the cleaning experiment was carried out. The experimental results were in good agreement with the theoretical analysis. The research results can be used in the design and optimization of related equipment. Some of the results can be used in the research and equipment design of agricultural products grading and optimization.