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Don't format it or partition it via Windows, you will lose everything.
If you are on XP and the partition is too big, you will not be able to access it. If it is just free space and the actual content is smaller, you can repartition it into two smaller drives with a third party program. But once again, DONT do it with windows, only use software that won't destroy the data like Partition Magic or similar.
edit: To be more clear, XP and some older machines combined cannot access drives over a certain size. I forget the exact limitations.
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