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Ok, here goes. If they are on separate partitions, boot the machine selecting Windows XP as the os you want to load. Once there go to the my computer start menu link or desktop icon. the partitions should be listed as drives, just right click one and select format from the context menu. You can do a Quick format to make the process go faster if you want. once the first is done do the same for the other partition. You can not format the partition XP is on by mistake because you are booted on it, windows wont let you so its a safe process.
once the second partition is formatted you need to reboot, select XP because the boot loader will still have 2k and 98, once you are loaded up on XP click start, then run, type MSCONFIG in the command box and click ok.
The system config utility will come up, click the tab that says Boot.ini then there will be a button that says check all boot paths, click it and windows will tell you it has found some that dont belong and you just OK it to fix them. its really all you have to do. Only thing XP will not be on the C drive, it really will not be an issue except the occasional software install will try to use C, just change the install directory if you have trouble getting software to load. Most of the software detects the system setup and its a non issue. Nice thing about it, most viruses are coded to the C drive directories and do not follow through with the creators master plan. Only way to make the XP copy you have now the C drive would be to use a third party program that changes the drive paths and all registry assignments like partition magic. I really do not see any reason to worry about it, I personally would leave the letter whatever it is.
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