Well I am stumped on the issue then. I have tried three different HDD's in the CD drive bay and they all do the same thing. They don't show up in Windows in any respect and they make the bios screen stutter on loading for about a minute or two.
I feel it is a positive that there is a difference when I attach the drive rather than it just simply carrying on as normal.
Where would these four ports be? The CD drive bay, normal internal hdd caddy... There is no SATA port on the outside of the laptop.