I have an issue with my office minibook (fujitsu siemens amilo mini ui 3520 windows xp ) I wonder if you could help me because I have to make it work untill tomorrow

After using a biofeedback software which I'm using a long time now for the first time the screen froze and my assistant terminated the minibook using the button. Then windows xp wouldn't boot appearing the message windows/system32/config was corrupted in a black screen. I am now using the original recovery disk and I just want to ask if it will overwrite all files and if I lose my installed software... Thanks for any help. Appreciated!