The present dataset is based on a nine site study of fine seabed topography in intertidal zones. Four coral sites (Maupiti A, B and C and Niau islands) and five rocky sites (Ars en Ré, Socoa, Parlementia A and B and Banneg island) have been explored. The data has been gathered using on-foot GNSS RTK for all sites (Trimble R8/R8S and Leica sytems) except Banneg island, where aerial Lidar data from Litto3D program has been used. The horizontal resolution varies between 3.8 and 12cm allowing to describe a wide range of spatial scales (generally over 3 spectral decades). The data has been processed to explore the statistical and spectral metrics which can be used to characterize the architectural complexity of seabeds.