In this article, based on the real shape of gravel particles, a random polyhedron model is established, and a three-dimensional (3D) finite element (FE) analysis method is proposed to study the wave dissipation of broken gravel. In this article, the generation algorithm of 3D gravel with random size and shape is proposed, and the 3D meso-model of gravel particles is established. The numerical simulation of air explosion of explosive in free field is carried out by using LS-DYNA software, and the sensitivity of grid size was verified. Finally, it is concluded that the meshing calculation result of 0.01m element is more reliable. In order to verify the effectiveness of the analysis method, the numerical results are compared with the limited experimental data, and a good agreement is obtained, which shows that the 3D mesoscopic model and the numerical analysis method of gravel particle system can reliably predict the propagation of shock wave in gravel. Then, the wave dissipation performance of gravel layer under three working conditions of no water, partial water and all water is explored, and the dynamic response, energy analysis and meso-deformation of gravel particles are studied by numerical simulation. It is concluded that the gravel particle system significantly weakens the shock wave, and the peak pressure attenuates exponentially in the velocity direction, and the existence of water will affect the attenuation ability of the explosion wave.