personally I have concluded for my usage, the SATAII bays are plenty enough for my SSD's. Both are SATAIII spec, but the mac's boot time and their seemingly instant access time is plenty.
Ok I dont often deal with huge files, so its not an issue for me and I can see where some needs would notice a speed boost with a PCIe or card with SATAIII; but its down to what you do with the system that matters.
I like my swift boot time for those gaming days where I jump in and out of bootcamp, but even then the thought of my MP taking an extra minute to boot isn't an issue. I am primarily a home user and my only productive work is the odd website or design work in Corel/Photoshop.
I did think about a Velocity X2; but I can't justify the cost versus the speed in my use case.
As for reliablity - the intel 520 256GB is holding up well after being a system disk for almost two years now. These days its purely for Windows 7 and gaming/Corel Draw.
The Samsung EVO is new to me, but I can't see why it should not outlast my Mac Pro.
both are Trim capable and so very fast.
My preferred mount is the
OWC Sled for SSD's - nice and neat and engineered very well.
(for now my EVO is in the optical bay as I needed to steal its SATA Power port for a USB3 card I am reviewing, but when I make a wiring loom it will go back in the sled, nice and neat).
I used to care about benchmarks and such forth, but nowadays I've realised that seeing a bench on my Intel SSD in SATAII versus SATAIII is just numbers. My actual experience is that its seemingly just as quick in either method. Apps start fast and load/save times are so fast I can't tell the difference.
The only time I drag out benchmark software now is for review purposes.
I think if you could share what you use your MAc Pro for on a daily basis; then we could give more targeted advice on which solution is best for you.
Of course if you don't mind the extra seconds on boot time and budget is not a concern; then go for the PCIe solution (get a x2).
Happy Days