I have a system I am working on it is running windows xp media edition. It had a virus / malware issue which I have resolved but it won't read flash drives, cd's or dvd's except if I use linux and live boot then it reads them just fine. It does detect the cd drive, and will do a software eject of the tray. It also detects flash drives, but says that it is not formatted ( this is not a real problem I tried with several and they are working on another windows xp machine ). Please let me know if you have seen a similar problem and have an idea what to do next.
( I have checked power, cables and master slave that is all in order )