GottaBuild:

It may be absolutely normal. Sometimes the drive may do a seek/read routine similar to what a hard drive does when it reads files from disk. You might try using the "knoppix dma" cheatcode on startup to see if it smooths things out a bit. If you watch your hard drive activity during the operation under an Installed OS, it appears to be similar in nature to the optical drive activity with a Live disk. The CD Rom might appear to work differently when reading audio or larger files under Windows.