Howdy Cecil!! Welcome to IW!!
Definately save your old override files (if possible) and see if that also helps. Morgeruat mentioned that.
I did about the same thing you are. I went from a PC to a Mac... so I was able to scoot over my files as well (also the plethora of portraits and sound files that I had gathered.)
Everything should be there. You may also want to ask Black Isle about that loss of rep. It was probably a bug of some sort... let us know how you make out with all of this!