(1) connect ONLY the SSD, connect it to the Intel SATA III.
(2) When first power up, go into The Bios and set controller to AHCI
(3) Inttall windows 7
(4) when windows is installed, go to Intel website and download the RST driver (ver 10.6)
(5) everything OK, Then
Connect up the two HDDs. The New one can go on a sata III port but does not have to.
Comment, I would not use the other 3rd party sata 6 controled ports (Disable in bios) unless you need them