They are set however the BIOS doesn't give the option to address the drive alone - just the RAID controller. I spoke with Lenovo again yesterday and they said the only way for the internal drives to be addressed is through the controller, which isn't support by VMware. So I'm going to use USB flash drive to boot from.
It's curious though that VMware can install to the drive, and can see the drive as having a VMFS partition on it when I boot with the installer, but can't boot to it.
Thanks - on to USB flash.
Kevin