Um, with those problems you're describing with the PAF Pro you have, it sounds like you might be closer to Ed's tone than you think! His original pickup is famous for confusing multimeters and being quite a pain in the ass to replicate.
The key to the brown sound is the amp, effects, and most of all, fingers.
Might try a warmer pickup like the Dimarzio PAF, PAF Classic, or Duncan '59 or Seth Lover. GFS pickups are okay for what they are, but nobody's saying they're better than the big guys yet.