My heater when running works fine. At the end of the heating cycle I get a loud clicking sound coming from the gas manifold/regulator unit. It sounds like it is trying to relight the gas. I have to turn down the thermostat the stop it.
It sounds like you might have a spark igniter on the unit that is being told to relight the burners. This is probably the tstat as this is the only control that "tells" the unit to come on. There isn't anything else internally that will cause this problem. Replace your tstat and I bet this solves your problem.
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