i'd stick with matched sets, if nothing else they'd hum-cancel better when both on.
also, any pickup set will naturally have "more lows" in the neck and "pronounced mids" in the bridge, due to their locations. if anything, you'd want to tweak pickup response to "counterbalance" those tendencies, looking for a tighter, cleaner neck pickup and a deeper, bassier bridge, so that the results were more "even" and balanced better.
what the heck though, duncan gives you something like 30 days to try a pickup then exchange it if you don't like the sound.
Guitar Repair Gnome
Alpha Music, VA Beach