For MILD lifts (to 31" tires), there's no difference between lifting a 4wd or 2wd, since you're talking about spring, strut & shock changes only. Keep considering the Ford, they're a good option for desert running. Just keep in mind I'll still be out wheeling my kick when you're heading back to a gas station
Really though, the Ford has it's advantages, and the Suzuki has it's. Just figure out which fits your needs better.
I prefer auto for rocks, and manual for the faster stuff. Manual has the added benefit of being able to be bump started should your battery drain down, or the starter fail.
You can get away with 2wd, but you'll want a locker of some kind. A 2wd locked is approximately capable as a 4wd with open diffs for the kind of wheeling you're talking about. You'll also be better balanced during jumps (less weight up front). That reminds me - consider re-locating your battery into the cab, or out back somewhere. 25 lbs out of the engine compartment, and back somewhere (and probably lower) makes a significant difference.
If you can afford coil overs, go for it. But, I'd get the OME kit. Unless you're considering an axle swap - it's by far going to be the best suspension you can get your hands on for what you're doing. At $700 for the full lift kit - it's VERY reasonably priced. Go with 29-31" tires (I'd lean towards 29" as there's no diff gearing options for kicks). If the tires rub, bust out your favorite cutting tool, pliers & a hammer. In high-speed off road, you want to avoid lift like the plague. Fender trimming is your friend. Calmini doesn't sell their A-arms seperately. Do the Hagen Widening mod, and you won't need them:
http://www.zukiworld.com/month_120102/feature_hagan_frontendmod.htm. You'll also only need one trail spare CV (if you do 4wd), the tires will center better (less lift needed), it'll widen the stance (remember stability?) and it'll soften the suspension. Among cheap desert runner mods, this one is king. Consider some good bump stops & drop limit straps to keep your struts & shocks alive.
And get a roll bar. It's only a matter of time before you end up on your lid.