Michael:
FWIW, here's my 2 cents.
The closest I have to your collection is a PRS CE24, a 1961 Strat (the real thing, not a 1961 manufactured in 2005), and my '83 Alembic Electrum. (My custom Further is on the way, you can check it out in FTC - Bill's Custom Further). I play mostly rhythm with my band with some leads and slide. I prefer a clean tone. All three guitars supply that. The Alembic, however, has far more presence and is much more flexible that the other two.
Generally I love the rhythm sound of my strat (usually using the neck pickup) but have always found the lead sound lacking. I often find myself playing lead on the neck pickup rather than the bridge to get closer to the tone I want.
The PRS is just the opposite. I love the bridge pickup tone for lead, but have found the neck/rhythm tone lacking. And the 5 position rotary pickup selector switch is a bit unwieldy.
The Alembic gives me everything I'm looking for. Very clear bell-like tones for rhythm. Between the pickup pan knob and the filter I can dial in just about any tone I'm looking for. I use the Q on rhythm when I want to cut through the mix without adding mud, typically on a country flavored tune like the Byrds' Mr. Spacemen. I find I can use this setting to approximate the middle pickup sound of the Strat. The Q also is frequently kicked in for leads. The Alembic is the closest I've found yet to that Santana cosmic heartfelt sustain.
As for necks, I like all three, but admittedly in my case the Alembic comes in last. The PRS is the wide thin carve - very comfortable. The Strat is a slabboard '61 - 'nuff said. It is simply the best feeling neck I have ever played. (My custom Further's neck is based on the Strat's). The Alembic has a very comfortable neck, but the original owner had the nut cut for very narrow string spacing. I plan on having Alembic widen the spacing (there is more than the usual amount of neck on the outside of the E strings, so there is room to spread them out a little). If you order a new one, I would certainly pay attention to string spacing. Measure your favorite's nut width and let Alembic know. I hope some of this helps you. Bottom line, there is nothing like an Alembic except another Alembic.
Bill, the guitar one