I think you hit the nail right on the head. Use the Intel ports when possible as they will out perform the Gigabyte ports. If you have more than 6 SATA devices place only optical drives in the Gigabyte ports when possible. It would also be preferable to run the Intel controller in AHCI mode and use the Intel RST driver. If the Intel controller is not already in AHCI mode (bios setting) you can't just change to AHCI mode or the PC could be unbootable. Best bet would be to leave the drive connected to the Gigabyte controller temporarily. Change the Intel controller to AHCI mode in the bios then boot windows and allow windows to install AHCI device drivers included in windows 7. Once complete shut down, change the SATA cabling so the drive is connected to port 0 on the Intel controller. Boot to the bios and make sure the boot order is set correctly to boot from the Samsung drive, save and exit the bios. Once in windows install the Intel RST drivers.
Originally Posted by mathesar
Main Box*i7 4790K*Z97 Extreme 6*2x8 gigs Crucial BS DDR3-1600*Samsung 850 Pro 128 gig*WD Black WD2002FAEX 2 TB*ASUS DRW-24B3LT*LG HL-DT-ST BD-RE*Corsair AX750 PSU*Fractal Design Define R4 case*Windows 7 Pro 64 bit SP1