Cleaned up the faces the way I was looking to do so the best I could. This Blender file is more up to date if anyone did wants it.
https://drive.google.com/file/d/0B1Y...it?usp=sharing
Finally back to working on actually fixing height properly. I'll give a example sample of what I have in mind in a bit tonight or tomorrow most likely.
I'm leaning towards going making majority of upper portion of the map higher elevation than lower portion though with some variation tossed in make it interesting. Haven't quite decided how the actual tops will be if they will be somewhat flat and cannon/plateau in design or mountainous or a mix of both. It's defiantly a artistic decision I'll have to wage and judge a bit as I go I think, but was kinda leaning more toward a semi flat plateau design because then perhaps it could be utilized a bit.