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When I first got my SSD, I cloned my system from the old 3.5" to the SSD. The SSD was connected to one of the four hard drive connectors. I never used the optical bays for an SSD, but I'm sure they would work equally as well. I ran it in one of the hard drive bays for a month or two before purchasing a PCI-e SATA card.

Did you see a noticeable improvement when you used the PCI-e card?
 
Did you see a noticeable improvement when you used the PCI-e card?

It's difficult to quantify... When I first made the switch from SATA 2 to SATA 3, the improvement felt slight, at best. I guess I was still getting used to the massive speed increase going from a platter based hard drive to an SSD. Benchmark-wise, my reads went from about 270MB/s to 500MB/s, but the improvement was nowhere near as noticeable as going from a platter based hard drive to SSD.
 
Another idea

I use the ODD1 and ODD2 ports and mounted them on a DX4:

http://www.transintl.com/mac*************mac-pro-enhancements/dx4.html

I use the ODD1 as the system boot drive and the ODD2 has my Windows 8 VM.

The drives I have are the Crucial M500 960gb drives:

http://www.newegg.com/Product/Produ...E16820148696&gclid=CNSX1-vMsLoCFaU5QgodiUEAyw

No, they are not screaming fast, but if the power does suddenly go out, they have the ability to write that last bit of data to the drive.

The system runs really well, and I have had no issues. But since this setup was for our office system, both of those drives are backed up to a 4TB RAID 1+0 array composed of eight if those M500 drives. Unless there is a fire, or someone steals that thing, I think the system has enough redundancy since I back up the critical data using Slink to my home computer.
 
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