What is the best way to put 2 intel x25m g2 80gb in a mac pro 09. One for os x and apps and one for windows, what is the best setup on the windows side as well. Like should all my apps go on it or on my 320gb seagate? I currently use my four drive bays
1.Stuff both of the SSD's in the empty optical bay with either a ready made solution, or a DIY one.
This is the least expensive ready-made mounting solution that will work for you. $9USD isn't too bad.

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But if you've an old CD/DVD drive lying around (DOA is ideal), you could disassemble it for the metal plates. Then use one of them as a mount. Just drill some holes.
2. Use a PCIe SATA card to attach the Windows disk to, and the the other (OS X) drive to the available port in the empty optical bay.
3. Power for the second SSD in optical bay #2. One way to do it, is use a
backplane extension cable attached to the connector for the empty optical bay, and splice it with a
SATA power cable (cut the Molex end off, and tie the wires in with the power wires on the backplane extention cable - soldering + heatshrink tubing is best, but if not possible, it's still easy enought to do with crip connectors, or wire nuts worst case). There's no modifications to the existing wiring that could void the warranty.
gugucom's also found a way to do this, and it's a bit cleaner (no additional cable length to deal with). But he's in Germany, and the adapter used may not be available to you. Worth looking into, if he'll post a link/description of the adapter.
