In order to smooth out the output fluctuation of wind power generation system, a hybrid energy storage dual-layer fuzzy control strategy based on wind power prediction was constructed by adjusting the control strategy of hybrid energy storage system(HESS) to meet the fluctuation limit of grid connection. Firstly, the improved complete ensemble empirical mode decomposition with adaptive noise (ICEEMDAN) was used to decompose the original wind power data. Secondly, the improved Adam algorithm and Transformer model were combined to predict each component, and the prediction results are superimposed as the final prediction result. Finally, based on the predicted wind power fluctuation state and state of charge (SOC) of the hybrid energy storage system, the dual-layer fuzzy control strategy was adopted to adjust the hybrid energy storage system to ensure that the overcharge and overdischarge of the hybrid energy storage system are reduced under the premise of smooth grid connection of wind power. The results demonstrate that the proposed control strategy achieves lower fluctuation indices in wind power output, ensuring reliable grid connection. Moreover, it maintains the SOC of the HESS within an optimal range, leading to an overall enhancement in the system's comprehensive performance.