installing Debian broke Windows booting

[Pollywog <linux-debian@shadypond.com>]

I was running Xandros 3 but after the recent updates to Xandros, I was unable 
to install Unreal Tournament 2004, so I installed Debian so I could install 
that game.  The problem is that I play two other games that will run only on 
Windows (not WINE or Cedega, I tried both) and after installing Debian, I can 
only boot Windows in "safe mode".  I could reinstall the Windows partition 
but if I do that, I will probably be unable to boot to Linux.  Since this 
Debian system uses GRUB and not lilo, I could not make a boot disk (a floppy) 
using the mkboot command.  I have my Debian Sarge "netinstall" CD and my 
machine can boot from a CD. 

Someone on a Debian IRC channel suggested I mount the Win98 SE partition in 
Linux and copy the needed file (krnl386.exe) to /windows/system on the Win98 
partition and I did that, but the machine still would not boot to Windows.

Is there a way out of this without having to reinstall Linux?

thanks