I want to give a simple explanation before I go any further. On the heating side of a unit even though tthe temp has satisfied the thermostat, the fan will run until it cools down the plenum where the air flows from the air handler. There is a bimetal switch called a fan limit that operates the blower when the plenum reaches the temp set on the fan limit switch. Now if your fan keeps running even after the plenum chamber has cooled down, then you could have a fan limit switch that is stuck in the run position and must be replaced in order to correct the problem.
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