I do have a video card installed in 2nd blue pcie slot and onboard video disabled. which bios version do you have? I have the one from 2/28/2012.
so when yours goes into sleep does all the fans and everything actually power down aside from the light around the power button blinking? On mine, the light around the power button blink, the hard drive and monitor turns off. But all the fans as well as the psu and the fan on graphic card and the heatsink stays on. when my z800 computer sleeps, everything gets power down with only a blinking light left around the power button.
Btw, I have the phanteks case and the natex S2600cp2j combo just like you
. got an NVidia fx 13800 . waiting for my pcie usb3 and sound cards