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I'd recommend separate drives over two partitions...
Is any of this a legit issue on standard bootcamp? Mine's been perfectly behaved for the last 3 years and knowing that I potentially shouldn't trust it is annoying.
6pt-
I don't think so. I haven't heard of it being a problem and boot camp isn't just software, it uses the firmware in your Mac, which is why you can't use boot camp on a hackintosh, but this means that it knows to look for the boot camp stuff first. I think it keeps it on a tiny hidden partition on your hard drive, IIRC, which messing about with Windows wouldn't affect.
Fox
It becomes even more of a ball ache I'm afraid. Since 10.9.2 it turns out Apple broke the way I linked to of manually enabling NTFS write access. I just tried it and I couldn't remount the drive until I'd taken out the additional string in the fstab file. There are ways of getting write access another way but they involved third party drivers and YMMV.
I'd recommend separate drives over two partitions. I used to run my Windows/Mac OS on two partitions, but the problem is that Windows is an antisocial wotsit and when you install big updates it will fuck about with the Master Boot Record (MBR) and the next thing you know you can't boot into anything but Windows (OSX never does this). Also some Windows updates wouldn't install when Windows was on a partition because it expected Windows to have the primary boot record (when if you're using the Chameleon bootloader like I am that lives on the Mac OS disk, you need the Mac OS disk to have the primary bootloader).
I actually had an issue once after installing Windows on a physically separate disk when it STILL managed to fuck up the MBR on the other disk. I still think this should have been physically impossible, but it happened. So now when I do a new Windows install I tend to unplug my Mac OS system drive out of (arguably justified) paranoia.
I don't know anything about virtual machines but two drives or a fast VM set up seem like the best options.
IT JUST WORKS*!