I don't think being unable to use NTFS outside Windows is that big a deal anyway. If you want to use a Windows-NT based OS, it's best to use it's native file system for the most power in that OS, so NTFS. If you're using Linux, it's best to install to a partition using one of Linux's native file systems, so ext2/ext3/reiserfs/whatever else they're coming up with. If you're using BeOS, you'd want to install to a BeFS partition. I don't know what the heck Macs use In that way though, you're not using the OS you chose, or letting it perform, in as half-hearted a manner as you might have if you had picked a different file system. Stuff like FAT32 is really only for cross-platform compatibility for sharing data these days.

Linux having support for the widest range of file systems though just makes it the best for troubleshooting a computer regardless of the installed OSs.