I'm using a CIOS installer, I'm not entirely sure how I would go about using a wad manager. I've pretty much just got my homebrew channel installed, and that's about it.
You're getting off easy. jEnesis destroyed my 1gig sd cart on my R4. When I loaded it up into my PC, there were four files, all of them named with odd symbols. Couldn't delete them; had to get a new cart. Thank you newegg.