This dataset contains the hourly gap-filled meteorological data at nine Greenland Climate Network (GC-Net) stations: Crawford Point 1 (CP1), Dye-2, NASA-SE, Saddle, South Dome, NASA-E, NASA-U, Summit, Tunu-N for the period 1998-2017. Meteorological variables include: air temperature at 2 meters (m) height, relative humidity at 2 m height, wind speed at 10 m height, atmospheric pressure and adjusted snow fall rate from surface height sounder . The dataset also includes surface energy budget components: upward and downward shortwave and longwave radiative fluxes, sensible and latent heat fluxes (and subsequently sublimation/deposition), conductive heat flux into the subsurface, surface temperature and surface melt. These data were prepared for, and fully described in Vandecrux et al. (2020, https://doi.org/10.1017/jog.2020.30). For their calculation, raw data from the GC-Net stations (available at http://cires1.colorado.edu/steffen/gcnet/) were filtered from erroneous measurements and gap-filled using either nearby automatic weather stations or adjusted RACMO2.3p2 regional climate model output. Downward longwave radiation is not monitored by the GC-Net stations and is therefore directly taken from RACMO2.3p2. Upward shortwave radiation was gap-filled using gap-filled downward shortwave radiation and daily Moderate Resolution Imaging Spectroradiometer (MODIS) albedo. The surface energy budget calculation uses the Monin-Obukhov similarity theory accounting for the near-surface atmosphere stratification.