A newly developed method to derive melt pond bathymetry from aerial images allowed us to compile spatially fully resolved maps of pond depth on the MOSAiC floe from three measurement flights on 30 June, 17 July, and 22 July 2020. The pond bathymetry maps provide an unprecedented comprehensive insight into the spatial and temporal development of ponds and their geometry. They were derived to better understand pond evolution, determine the volume of water contained in the ponds, and eventually obtain improved parameterizations for ponds. The data is provided in GeoTIFF raster format, with every pixel in ponds containing the depth at that location in meters, downward negative. Pond bathymetry was calculated from orthomosaics and digital elevation models processed from helicopter aerial images collected on MOSAiC floe grid surveys.Pond bathymetry is stored in GeoTIFFs, containing pond depth in meters, in the negative downward direction. Only regions classified as ponds with the classification algorithm PASTA-ice are included. Some pond-like objects on the floe were classified as submerged ice/open water due to their visual appearance or connection to the floe edge and are therefore not included. The raster data is projected in WGS 84 / NSIDC Sea Ice Polar Stereographic North (EPSG:3413). It was derived from the orthomosaics and DEMs presented in doi:10.1594/PANGAEA.949433 and can therefore be overlaid directly with this data.