It's been about over a year since I've played and I put alot of work into customizing my add-ons. So when I quit I saved all my saved variables and such into a folder. I just rejoined today so I copied and pasted the items in that folder over my WoW saved variables, but it's not working. It all shows in the folder and when I join WoW nothing for an add on shows either.
I'm pretty desperate for help right now so any advice would be extremely appreciated.
Verify you are using the right <Account Name> folder. The folder name originally reflected the account username, but after the bnet integration it was changed. I don't know exactly what the folder name represents, but I assume it is tied to your bnet ID. My folder name is a string of numbers. If you have only ran wow with a single account after the reinstall, then it should be easy to determine the account folder because there should only be one folder in WoW\WTF\Account\ .
If that doesn't fix your problem, then the only other thing I can think of is that the addons saved their variables globally to the account and not per character. They are stored in WoW\WTF\Account\<Account Name>\SavedVariables and if you backed them up you can restore them.