I got the big brother of your mount a few days ago, and yes it is a little confusing, Lucky i have had heaps of exp with other telescope setups, though in saying that i had to call in the back up of another noob thats a few months ahead of the learning curve than i am
In another post i stated its like throwing a ball left handed when your naturally Right handed :S.
Getting used to the 2 axis of movement isn't easy though learnable.
One thing to go and buy yourself from bunnings is a digital Inclometer 30 odd bucks worth. this is INVALUABLE beats a level every time and can get level within 0.1 degree. you can then move to the head unit and set the dec to your area mine is 32d15s something like that so you just whack it up and away you go, the last part of my setup i use a compass (this actually is the first step) to get true south - magnetic deviation which for perth is 5.3d west.
I don't bother with the polar scope though i would like to have a go at spotting octanis just to clarify my polar alignment and drift once i get into astro photography.
One last thing that i will be doing is making a set of vibration pads for the eq feet, this does 2 things. Protects the bottom from getting scratched up. and suppress's vibrations or limits them at least.
Lets hope i can get my rings befor the weekend.

that way i can give it a good run!