This hydrographic data set includes CTD and XCTD data from the long-term Hydrographic Fjord Program in Godthåbsfjord, Greenland, collected by Greenland Climate Research Centre, Greenland Institute of Natural Resources (GINR), Nuuk, Greenland. XCTDs were deployed from a helicopter close to a marine terminating outlet glacier. The CTDs in Godthåbsfjord were occupied at the edge of a dense ice field during small boat (Avataq) day trips to the inner part of the fjord. The CTDs outside Godthåbsfjord were obtained by RV Sanna and HDMS EJNAR MIKKELSEN in connection with GINR's annual monitoring program.