The discontinuous permafrost region of northwestern Canada is experiencing rapid warming resulting in dramatic land cover change from forested peatland permafrost terrain to treeless wetlands. Extensive research has been conducted throughout this region to gain insight into how climate‐induced land cover change will impact water resources and ecosystem function. This paper presents a hydrological and micrometeorological dataset collected in the Scotty Creek basin, Northwest Territories, Canada over the period of 01 October 2014 to 30 September 2015, a sample of the intensive and coordinated measurements collected annually at this site. Micrometeorological data collected from four stations, one located in each of the land cover types representative of those comprising the Scotty Creek basin including bog, channel fen, stable peat plateau and peat plateau undergoing rapid permafrost degradation and loss, are presented. Monitored micrometeorological variables include incoming and outgoing shortwave and longwave radiation, air temperature, relative humidity, wind speed, precipitation (rain and snow) and snow depth. Deep ground temperatures (~1–10 m below the ground surface) from a channel fen as well as disturbed sites common to the basin including a seismic line and winter road are presented. Water levels were also monitored in the representative land cover types over this period. This dataset is available from the Wilfrid Laurier University Library Research Data Repository (https://doi.org/10.5683/SP/OQDRJG) and can be used in coordination with other hydrological and micrometeorological datasets to examine spatio‐temporal effects of meteorological conditions on local hydrological responses across cold regions.