Got a new JTV-89 about 6 months ago. The magnetic pickups didn't sound quite right, like maybe they were reversed. I took the back cover off and confirmed that the are reversed. Simple enough, I'll just swap them on the PCB. When I was researching the wiring, it appears that not only are the pickups reversed on the PCB (neck in bridge and bridge in neck), but it appears that they swapped the red and green wire on one of the pickups.
According to the diagrams I've seen here W4 should be green and W5 should be red, but mine are reversed:
Looks like maybe this causes the north polarity to be reversed (inner coil winding is going backwards)? So what effect does that have?