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This study presents the results of a 5-year monitoring program of ice cover, water temperature, and local meteorological conditions carried out in three reference lakes in the periglacial zone of the Polish Tatra Mountains. On the basis of this information, the relationships between the weighted mean water temperature of each of these lakes and the air temperature, wind speed, precipitation, and ice–snow cover in the summer, spring, and autumn seasons, as well as year-round, were described, and the roles of the morphometry of lakes and the topography of their catchments were determined. It was found that the sensitivity of the lakes to climate warming increased with a decrease in their area/depth and shade, and with an increase in altitude and the share of wind-blown snow in the formation of the ice–snow cover. An increase in the mean annual air temperature does not necessarily translate into the warming of lakes, but, paradoxically, may result in their cooling. The current climate may not be best reflected by the most sensitive lakes, but rather by the largest ones located in the subalpine zone.