Look at the folder structure that's already in your Addons folder. As far as I know (after all, it's been almost 2 year's since I have had a computer) you have to download each individual module from GitHub now, so, do each module individually. Download the module, unzip it, delete the module in the Addons folder, move the new module to take its' place. After you're done, fire up WoW and test. Hopefully, Carbonite works OK.
You don't have to worry about your settings, either, as they're kept in the WTF folder.