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NTFS is a superior file system, period.
It is faster, more stable, supports larger drives, and also has journaling and security.
The only real benefit to FAT32 is that its pretty universal. Most systems will have no trouble reading or writing to it.
Also, after 32GB the FAT32 file system starts to use 32k cluster sizes. This generates more wasted space than NTFS, which defaults to 4kb.
Another option you may want to consider, instead of a monster 32gb FAT32 partition, just make it 5GB's or so. Use it as a proxy between the Mac and your PC. You can always put the files into the NTFS partition once you get back to your PC. 5gb out of 200 isn't going to make a huge difference.
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