If you buy a completely new J-Set or have "real J-Set", it would be better to place the neck PU to the "normal bridge" and the bridge to the "between bridge-PU and real-bridge".
Why? The bridge PU normally has some more windings and has more output. It wouldn't be good to put the "weaker J" nearer to the bridge. The amplitude of the string gets smaller and smaller ...
If you have out-of-phase problems with the neck PU, you can change (twist) both J-wires! Black would be HOT then, White/Yellow GND.
But keep that the wire from the "middle/upper J" (then black instead of white/yellow) is connected to the On/On/On switch an the "lower J" (then with white/yellow instead of black) is directly connected to GND.
I think it is much better to keep the "middle/upper J" on in SC-mode ...
Why? The bridge PU normally has some more windings and has more output. It wouldn't be good to put the "weaker J" nearer to the bridge. The amplitude of the string gets smaller and smaller ...
If you have out-of-phase problems with the neck PU, you can change (twist) both J-wires! Black would be HOT then, White/Yellow GND.
But keep that the wire from the "middle/upper J" (then black instead of white/yellow) is connected to the On/On/On switch an the "lower J" (then with white/yellow instead of black) is directly connected to GND.
I think it is much better to keep the "middle/upper J" on in SC-mode ...



