The issue may not be the chipset, it may be (as the thread title suggests) NTFS performance on Linux. The ability to write to NTFS partitions in Linux is a fairly recent development; it is possible that it is just not very well optimized yet. What distro are you using, and are you using the stock NTFS support for said distro?
Edit: If I am interpreting
this table correctly, Linux NTFS performance should be comparable to the native ext3 file system for sequential operations, but will be much slower if you are creating large numbers of tiny files. That's assuming, of course, that you're using a reasonably current version of the NTFS-3G driver whose performance is similar to the one used to create the benchmark table.
Edit #2: And
any file system will slow down quite a bit if you are creating lots of small files, as opposed to fewer large files. What sort of data is this? If you are copying thousands of little files, your throughput is probably not out of line. If you are moving mostly large files, then yeah that is way slow.