I had the same type of problem not too long ago, and, while it may be scary, it's not hard to overcome. The answer to your question is almost certainly yes unless you have a way of backing them up (myself, I just got a new HD, installed Windows on IT, and copied everything over afterwards-I needed the extra space anyway). You will probably have to reformat and reinstall Windows. One thing you CAN try, is boot off the Windows CD, tell it to install to the Drive where you installed it before, and when it says it sees another copy there, press I think R to have it repair it (it's all there on screen, but make sure you have it try and do a regular install there first, if you select repair at the opening screen, it just brings you to a console thing). If this doesn't work, then you may as well reformat. You WILL lose all of your programs and settings, but if you get another Hard Drive or something of that sort to back up files, you will be able to keep saved games and such from games, documents, and stuff like that.