Installing linux to an NTFS partition sounds like a bad idea all around. Quick googling didn't come up with much, but I assume if it's working for Ubuntu they're doing a wubi style install and you're basically wrapping up a virtual disk on top of the ntfs partition. NTFS doesn't store the proper metadata to handle linux permissions and file access entries.
edit: Assuming it is a wubi install awful performance is the most obvious reason to not do it that way - http://www.phoronix.com/scan.php?pag...ubi_1010&num=4




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