I will have answered my own question, but would just like to have this confirmed.
Ive been planning on buying a SATA PCI Card for a while as my 3 onboard are used and due to the fact that SATA is hot-swappable it would give me the option of using multiple HDD for storage and just pluggin them in when i needed certain data.
Anyway - back to the question at hand

Does anyone see/know of any issues in using this to flash 360's from? Im sure aslong as the bios is able to detect it on boot there should be no issues.
This would just allow me for a simpler access to hooking up the 360's DVD-Rom to my PC