That wasn't how I was rationalizing it,
Here is why I'm leaning towards the single battery setup...
-Initial Cost and availability: As far as I know, there is no other battery with the same footprint as a PC1200. So to get a new battery I would probably have to order one online or find somebody nearby with one or two in stock. If I'm on a trip--even in the US--that isn't very convenient. Also, since Odyssey is the only company that makes a battery the size of a PC1200, I would have to pay premium for that battery. Replacing a PC2150 during a trip would be much easier since Group 31 batteries are stocked pretty much everywhere, and they would be cheaper since DieHard makes the same one for less and I also have the option of going for a Deka or Northstar battery of the same size. While the PC2150 is twice the cost of a single battery out of the dual battery setup ($400 vs $200), you don't have to buy an isolater kit which significantly increases costs. Single Battery wins here.
-Long term value: I separated initial cost and long term value because they are very different figures. I said this earlier but: if I understand how battery life works (and please correct me if I'm wrong), I believe I would have to replace the batteries on a dual battery setup more often, because I would be running the AUX battery through deeper discharge cycles. A full discharge of a PC1200 would be less than half of a discharge of a PC2150. Assuming that I use the same amount of power with either system, the AUX battery would age much more quickly. I believe that a single battery wins here.
-Simplicity of Design: With dual batteries, there is much more that can go wrong electrically, from more ground wires to faulty isolators to having the batteries fight each other (without isolator). For some problems there are simple and easy solutions, for others there are not. A single battery is pretty much a straight swap and so it wins here as well.
-CCA: With a starter and deep cycle battery, you only start your truck with the starter (unless you need a jump, but more on that in a sec). The PC1200 has a fairly average 530 CCA. Its more than plenty to start my car, but nothing special. The PC2150 has 1150 CCA or more than double the starting battery out of a dual battery setup. Single battery wins here
-Reserve capacity and Amp Hours: With the truck off and the dual batteries isolated, I will only have 78 minutes of reserve capacity and 44 amp hours. With a group 31 battery, I would have 205 minutes of reserve and 100 amp hours. This, once again, is more than twice the combined dual batteries. Single battery wins here.
-Backup: Here is where the dual batteries takes back some lost ground. If the starting battery fails, you always have the AUX battery to start the car. I agree that backups and failsafes are one of the most important things in a vehicle. If a dual battery dies, you have no way to start the car which would really suck, especially if the road that you are on is rarely traveled. Dual-battery setup wins here.
I originally asked which would be better because I think that having a backup in the middle of nowhere is extremely valuable. I thought that even though the single battery wins in most circumstances, the ability of not being stuck in the middle of nowhere was worth it. Then McZippie's post got me thinking about portable battery packs and generators. Would the money saved from a single battery setup be enough to cover the cost of a portable backup? Here is my cost breakdown to figure it out...
Dual Battery setup:
-$218 Odyssey PC1200
-$218 Odyssey PC1200
-$395 National Luna Split charging kit (This seems like a better and more reliable kit than the Kodiak Industries one)
-$??? battery tray built for Xterra (probably the kodiak industries one if I can get just the tray and mounting hardware). The price doesn't matter because it would be the same tray for the single battery setup (Group 31 is slightly smaller than two PC1200s).
--------------------------------------------------
Total: 830 + tray
Single Battery setup:
-$251.99 DieHard Platinum Marine Battery from Sears (Same as Odyssey PC2150 but MUCH cheaper) (woah!, when writing everything above I didn't realize how much cheaper the DieHard was.
-$??? battery tray built for Xterra (same as in dual battery setup)
--------------------------------------------------
Total: $252 + tray
Please point out if I forgot something because I don't want to unfairly judge these two options, but...
Total savings of Single battery over dual battery: over $500!!!
With that money I can buy:
$100 - A good quality 3-stage smart battery charger
$200 - Small generator (not a fancy honda or yamaha) but a reliable small 1000w portable generator
$100 - Two jerrycans for fuel
With that setup, I have the best of everything. I would have the best specs and be able to charge my battery if I do ever run it dead (which I doubt I would since I normally travel to a new campsite everyday). The generator would also provide power for anything that I didn't want to drain the batteries on. I would also use the battery charger if I had power at a campground to keep the batteries topped off even with electronics running. The jerrycans would mainly be for extra fuel for my car, but they would double as fuel cans for the generator. It wouldn't be an instant jumpstart, but it would work well and have other advantages (listed above)
I know many people swear by their dual battery systems, but if I can get much more for quite a bit less with great versatility and the only compromise being no instant jump start then I really can't justify a dual battery setup.
Let me know what you guys think, and please point out anything that I said that is incorrect. I'm trying to be unbiased in my analysis.
EDIT:
I didn't mention solar power because I'm planning on buying a RTT. Once thats installed, there is no more room for rigid panels on the roof.