In order to solve the problem of insufficient filtering accuracy of common fixed resolution surface，we propose a multi-beam filtering method based on adaptive multi-resolution surface. In the survey condition of steep ridge and small target protrusion with the change of large terrain，the adaptive multi-resolution surface automatically enhances the resolution of multi-beam bathymetric surface for the local area with characteristic terrain or surface features according to the change of terrain slope，so as to obtain a more accurate seafloor surface model. Based on this surface model，automatic filtering can be carried out，so as to retain more complete underwater terrain feature and small target，and the method is compared and verified. The results show that under the condition that most of the noise is effectively filtered，the integrity rate of terrain features and small objects can reach more than 98%. The multi-resolution surface and filter algorithm built in this paper can improve the accuracy of multi-beam filtering.