FWIW, I switched to 2x 6v and would never go back primarily because I get much more usable power compared to my old set up of 2x12v. The initial storage is greater plus I can run the 6v very low without damaging them.
I think it comes down to:
1. If you run large inverter loads, then 2x 12v might be best for you
2. If you are willing to spend much more on 2x 12v true deep cycle than 2x 6v GC, then 12 v might be best for you
3. If you boondock way out where running into a store to pick up a replacement battery is out of the question, then 2x 12v might be best for you.
4. If you never dry camp, then just get the cheapest set up.
5. In all other instances, it seems 2x 6v is the best choice: they'll last longer than a similar cost 12v setup, they'll provide more power, and they'll be more reliable.
For my application, +/-60-70% dry and 30-40% hookups, no heavy inverter loads and rarely more than an hour or two from a battery source, 2x 6v is vastly superior.