I really hate the kind of gameplay were I feel forced to be constantly updating a buff, I think its just annoying. So I was wondering if theres a mod that lets the alteration spells such as oakkin, stoneflesh, etc. be permanent, were only one can be active at a time (by only one being active at a time I mean, you cant stack stoneskin to get more armor, and you can't have oakskin, and stoneflesh up at the same time)?

...

The Oakflesh, Stoneflesh, Ironflesh, Ebonyflesh, and Dragonhide spells already do this.

How about Sustained Spells for making your buffs permanent?
http://skyrim.nexusmods.com/mods/13450
You can prolong an armor spell by having it autocasted for free when it wears off at the cost of some magicka regeneration.

They're not permanent, though. Balanced (or was it better? mysty's one anyway) Magic does/did this, but she's been busy for a while with her game company.