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This difference appears to be between Zone Thermostat Air Temperature and Zone Thermostat Cooling Setpoint Temperature or Zone Thermostat Heating Setpoint Temperature.

SetupOutputVariable("Zone Thermostat Air Temperature", OutputProcessor::Unit::C, TempTstatAir(Loop), "System", Average", Zone(Loop).Name);

deltaT = TempTstatAir(iZone) - ZoneThermostatSetPointLo(iZone);