File System Errors w/ NT and Linux

Jim asks: "I'm having severe problems with my Linux file system. I have a 6gb HD with a 1gb fat partition containing Windoze 95, a 2.5gb NTFS partition with NT workstation, and a 2.5gb partition containing Linux. I use NT's boot loader. I used the directions in the HOWTO docs to create a file from the Linux boot sector so I can load that with NT's boot loader. The problem is, as I switch back and forth between NT and Linux, I encounter severe file system corruption in Linux, and minor corruption in NT. I've already run a surface scan on the drive and no physical defects were detected. I was told by a colleague that Windows NT does not respect partition boundaries as well as it should and is corrupting the Linux partition. Does anyone know if this is true? If so, does anyone have a solution? Does anyone have an alternate explanation, or better yet: a solution?"