Methinks you mentioned you have the ASUS P8Z77-V Deluxe MOBO. If so, mayhap you can help me make a decision (no rush because I doubt I'll start this build until after the first of the year). I would like to use this board but it has only 8 SATA ports; only 4 are SATA III. My case is an Antec Two Hundred that will hold an SSD and up to 6 internal 3.5" drives. The case also has a built in 2.5" hot swap bay and I have a 3.5" hot swap bay that goes into one of the 5.25" bays that also has an e-SATA port in it (the case doesn't have one). To get enough SATA Ports, I would have to add this card which would give me four more SATAII ports.
My concern is where to put the contoller card. Ideally, I would put it in the bottom PCI-E slot on the Deluxe board but I'm concerned it would run into interference with the Front Panel Audio header (which I need). I would need the USB header closest to the front panel but it shouldn't be a problem (the card is about the length of the slot in the PCI-E slot). It would be nice if I could use the other USB header but I don't really need it.
Because of potential for interference with the Audio header, Plan A would have me plugging the card in the PCI-E 3.0/2.0 x16_2 slot. However, I'm concerned it would affect the operation of the video card (will need the card since I want to run three monitors with two TVs cloned to the third monitor). If that turns out to be the case, then I would need Plan B which is to plug the controller into the bottom slot but there is still concern for clearing that Audio header. It would also mean giving up adding Thunderbolt in the future.
Plan C is get the Premium board which is way overkill. I could put the controller in the second slot up from the bottom and the vid card in the top slot and there would be no way they would interfere with each other. I would also pick up a couple more SATA III ports. But I would lose 4 USB ports (which would leave me with only one spare) and two PCI-E 2.0 x1 slots (I may need them for TV tuners and a sound card). The board is also expensive. The mSATA board would be slower than a SATA III SSD so it wouldn't be of any use for me. There is also some controversy over whether the board has been discontinued or not. It would be a problem if the board failed under warranty and there were no more replacements.
If it would work for me, I would prefer the Deluxe MOBO. Since you have the board (I think), do you think the controller card would work in the second PCI-E x16 slot without affecting the vid card? If forced to Plan B, do you think the controller card would clear the Audio header?