1. Could give you the settings to use, but would take a little bit to work it as I'm not at home.

2. You should have atleast 2 copies of WoW (folders) on your hard drives. Your main should be running off one of them, alts off the second (or more).
Load up the alt wow, log in to any character, set graphics to minimum, exit the game. Next time you start your alts they should all have the same graphics settings.

3. If you are running all copies of WoW from the one folder, that could be why your macro's aren't saving. Try making them in the second tab in the macros section, they are on a per-character basis.

I'd also recommend getting a 3rd hard drive. As your two raptors are in a raid you aren't able to chuck the slaves on a separate hard drive. By using mklink you can greatly reduce load times and I/O strain, even if you are running two raptors it should still be faster.
I'll get back to you on the maximiser setup