So the first thing I did was looked into several issues:
1. No power to main PCB stack and the switcher was shorting out. I tested the switcher and it was bad. I picked up an new one and the same issue was there. I found out that one of the wires was hooked up incorrectly to the APU, causing a short. I switched the wire and fired it back up, no more short. I am now able to get the game to play blind.
2. Shifter board, no power. I am getting 20 volts to the board PCB from the APU. It's putting out 50v to the magnet which caused the shifter board connectors to overheat, including the PTC fuse to fry. I replaced the burnt connector and added a fuse. I did some additional testing, but it's still putting out way too much power for the shifter magnet. I'll have to look at this later. I also removed the shifter and found a few shorts. While that doesn't fix the power overload issue, its just one more issue identified. I did test the shifter magnet out of the game and applied 5 volts and it works great.
3. Monitor is dead, lots of chatter. I discharged the monitor and pulled the chassis out. I had to remove the motor driver board and the rear of the cockpit to pull the monitor out. I sent the chassis to Arcade Cup. I would rather spend my time repairing other things on the game, including an entire restore of the cockpit itself.
4. The brake board and motor driver boards seem to work fine. The motor seems to be working as well.
6. Light on the seat adjust button not working. Replaced the light on the seat adjust, working
7. Dead lights on coin door. Checked power, ok. Replaced the lights on the coin door, fixed.
8. Seat magnet not working hooked up. I traced back power to the APU and seems to fluctuate from 5 volts to 25+ volts. Issue may be the APU. I will need to look into this later. I did test the magnet out of the game and applied 5 volts and it works great.