Ok so we are still chasing a brake light issue. I have turn signals, taillights, and backup lights. I have power at the third brake light. Testing with the ignition switched on. So far I have tested that I have power going to the stop light switch and power leaving the switch when the brake is pressed. I have power at the BCM C2-54 pin (stop lamp SW sign) when the brake is pressed. I do not have power at the C3 A9 or A12 (Left and right rear supply voltage). If I run a jumper from C2-54 to C3-A9 or A12 the brake light illuminates regardless if the ignition is switched on or not. I have replaced the BCM with the same results. The new BCM did get rid of my alarm issue when the ignition is turned so that was an added bonus. I have also conducted a pin drag test and all connections seem to have the same resistance.
What else should I try? What are the chances that two different BCMs could have the same issue with the brake lights?