Windows XP: XP System Restore

XP System Restore

My USB ports were not being recognized and I decided to run the System Restore to reset my computer back to the original factory settings. Before I did that I proceeded to back up my hard drive onto DVD using the DVD recording program that came with my computer (Nero). Once that was completed, I performed the system restore function and it worked fine and restored my settings and am now able to use my USB ports. However, I could not run the executable that was created by my DVD burner program to allow me to restore my back up folders into their rightful place. What I then did (stupidly or not) was to try and copy the folders off my DVD back into the hard drive. Well the end result was a mess. My folders are all scrambled up and I have duplicate folders (such as the My Documents folder) sitting in different places on my hard drive. I would like to try and clean this up as best as I can, but I am afraid of deleting registry keys and/or .dll files that will mess up my computer all over again. Any suggestions would be helpful.

Thanks.