This data set provides ground in situ flux and meteorological science data from fixed instruments at three eddy covariance tower sites located in the Alaskan Arctic tundra. Real and gap-filled observations of carbon dioxide, methane, water vapor, and latent energy flux in addition to standard meteorological and environmental variables are reported at half-hourly intervals between 2011 and 2015 for sites at Atqasuk, Barrow, and Ivotuk, Alaska. The three sites form a 300-km north-south transect on the North Slope of Alaska, each site representing distinct Arctic vegetation communities. These tower measurements create a long-term record of one of the largest, most volatile carbon stocks on the planet. Observations from these towers are being used to determine the seasonal and inter-annual patterns of CO2 and CH4 flux, and their relationship to changes in environmental factors.