Originally Posted by labman
Usually there is a 24 volt AC transformer in the furnace with the secondary winding connected to a red wire running to the thermostat and a blue wire to the gas valve, A/C relay, and fan relay. From the thermostat there will be white wire to the gas valve, yellow to the A/C, and green to the fan. The thermostat is wired to switch the power from the red to the white, yellow, and green as needed with the blue completing the circuit. It may be wired to have the AC control wires return to the furnace and its controls and then a second pair of wires goes to the A/C unit.
Your system seems to have labeled the other side of the transformer C. I couldn't read some of the diagram. You must have a second wire, blue or brown, running out to the AC relay. Connect the blue or brown wire to the same terminal at the furnace, and to the "C" common at the thermostat. The W2, W3, etc. may be for furnaces that have different firing rates.