During the cold arctic winter, small mammals like lemmings seek refuge inside the snowpack to keep warm and they dig tunnels in the basal snow layer, usually formed of a soft depth hoar, to find vegetation on which they feed. The snowpack, however, is a heterogenous medium and lemmings should use habitats where snow properties favor their survival and winter reproduction. We determined the impact of snow physical properties on lemming habitat use and reproduction in winter by sampling their winter nests for 13 years and snow properties for 6 years across 4 different habitats (mesic, riparian, shrubland, and wetland) on Bylot Island in the Canadian High Arctic. We found that lemmings use riparian habitat most intensively because snow accumulates more rapidly, the snowpack is the deepest and temperature of the basal snow layer is the highest in this habitat. However, in the deepest snowpacks, the basal depth hoar layer was denser and less developed than in habitats with shallower snowpacks, and those conditions were negatively related to lemming reproduction in winter. Shrubland appeared a habitat of moderate quality for lemmings as it favored a soft basal snow layer and a deep snowpack compared with mesic and wetland, but snow conditions in this habitat critically depend on weather conditions at the beginning of the winter. With climate change, a hardening of the basal layer of the snowpack and a delay in snow accumulation are expected, which could negatively affect the winter habitat of lemmings and be detrimental to their populations.