Partitioning a MyBook to use with fcp... can it be Mac Extended and FAT32?

Hi, I'm a film student and a little while ago I just bought a MyBook 1T external hard drive (USB only).
I'm looking into reformatting my hard drive because when capturing with fcp (straight to the hard drive) I keep getting an error at around 9 minutes.
I did some research and found out that its because its formatted to FAT32 instead of Mac Extended.
However, I do a lot of work with PC's and transferring files on my hard drive and I read that once formatted to Mac Extended my hard drive would not work on a PC.
I was wondering if I partitioned my MyBook would I be able to make one part Mac Extended (for my capture scratch files) and one part FAT32 (that I could use like a regular hard drive for files between Mac and PC)?
Also just to be clear once the hard drive is Mac Extended I can still keep other files besides capture scratch files in that portion of the hard drive, it's just I can't transfer those particular files to PC. (Some of the website forums I read made me more confused haha)
Any help would be greatly appreciated,
Kyle

@ nick would that let me capture my footage to my hard drive without having to babysit
NTFS does not have the file size limit silliness that FAT has so you should be OK in theory.
Run a couple of test captures and see what you think.
USB is generally not a good interface for video as it delivers data in bursts. You need a constant stream as provided by FireWire or SATA drives. If you are working with low bandwidth video codecs such as DV, you might get away with it for a while.

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