I'm having a weird issue with a 1.2 I'm attempting to fix, for some reason, all of the controller ports are working except for port 2. The clock cap was removed and there looked to be some leakage however there doesn't appear to be any trace rot near the area where the cap was on either side of the board and all other caps appear to be in good condition.
Also, I tried swapping out the ports with one from a console that works and port 2 still does not work with any controller plugged in. Looking around, this doesn't appear to be a common issue and I'm not sure what else I could be missing.
Pictures of the board are attached.