This patent specification relates to methods and systems that can detect over cycling conditions that exist in an HVAC system. The over cycling condition can be caused by overheating of a forced air heating system or furnace of the HVAC system control. When the furnace overheats, a thermally actuated limit switch within the furnace may cut off power to a heat generation apparatus. The limit switch can reconnect the power to the heat generation apparatus after it has cooled down, at which point the thermostat control system may issue another heating call to continue heating the enclosure so that it reaches the desired temperature. If the overheat condition persist, then the thermally actuated switch will cut power, resulting in repeated power cycling. The detection system and methods can monitor these power loss events and use them as data points for determining whether an alert condition exists within the HVAC system.