Are you keeping the pots and switch from factory? If so I would probably follow the PRS wiring diagram (link here:
Here's the factory wiring diagram).
You could probably get away with just desoldering existing pickup wires and putting the new ones in. Colors for Seymour Duncan should be the same as above (black is hot and that goes to volume pot, green and bare go to ground, white and red twisted together and go to the coil tap switch (where it says white on the factory diagram, that should be white and red).
If you're using new pots, then I'd redo it all with the Duncan diagram. I like to make a little template from a piece of cardboard, trace where the holes for pots are, put the pots in and then wire it all up except pickups and jack, then install it.
More importantly, what pickups are you putting in?
One thing to be aware of if you haven't already checked, some PRS guitars DO NOT fit long leg humbuckers (like Antiquities, Slash, 59's, etc.). Not 100% on the McCarty 594 as it may be better, but could be an issue.