Every single file on C:\ (hd1) has been set to read only mode. I have tried
attrib -r c: /s /das well as a large combination of the attrib commands. And yes, I have tried unticking the 'read only' box. I am guessing this is because linux (xubuntu) locked the drive up.. Some mixup with file permissions as I was accessing the drive, then the server hit a flood and the computer crashed while accessing the Windows Partition.
Ha ha ha, good stuff.