I was looking into an Audere preamp.
Audere pots are not the "standard" size. If you order your Audere preamp with single (not stacked concentric) pots then you should make sure you drill the control holes by yourself. You'll probably have enough pots to install that you'll want to define your own custom layout.
The default 3/8" control routes by Warmoth are too large for the Audere single pots. Audere tries to stay one step ahead of this by including some rubber rings to make sure the pot mounts in the center of the existing hole. But these don't work very well, plus the thickness of most Warmoth bodies in the rear-routed control cavity means they're difficult to install.
Earlier responses recommending TAPE are spot-on. This really helps if you want to drill a clean hole which doesn't take out chunks of the finish. Brad point bits work better than standard bits. Drill quickly, press slowly, and make sure the bit is super sharp.
Pickup-wise, I was thinking about a set of SD NYC II passives ...
These are 5-string soapbar pickups, correct? The dimensions are the same as the "EMG 40" soapbar cavity size (4.0" x 1.5") which is pretty much a standard. Warmoth sells the Seymour "ASB2-5" pickups so they can route these cavities at no extra charge...
... and a P-bass pickup between the two. I was going to go with Warmoth's rear rout, but I was thinking about drilling for the pots and on/off toggles.
Given that the NYC II pickups have polepieces, and are intended for fixed spacings of 70mm (neck) and 74mm (bridge), you may not have enough room between them for a P-bass pickup cavity. Measure this carefully before you ask Warmoth to route anything for you. The P-bass pickup is fairly big and it may push the NYC II pickups too far apart, which means that your strings won't go over the polepieces.
If you were looking at "blade" humbuckers for the neck and bridge pickup, *and* if the Warmoth body has enough room for 3 pickup routes of this size (which pretty much excludes the Gecko) then this *might* work, but it's going to take some careful planning!
I'd like to know more specifics about what you're planning to buy. What style of body and neck? What woods?