MSI x58 ProE and Corsair 12GB (3x4GB) RAM Issues

Greetings!
New poster here with a question that I cannot seem to find an answer to anywhere. I've looked over the forums but have had no luck figuring it out. My goal is to identify the culprit and replace the appropriate parts.
I built this computer in 2009 with the intention of doing OpenCL/CUDA computing and handle all my multimedia. At the time, 6GB DDR3 RAM (3x2GB) was about all I could afford. The machine works great, but lately, attempting to do some video and image processing has been hitting limits on my available RAM. I also want to run a linux VM or two. I thought I would order the Corsair 3x4GB DDR3 kit from NewEgg and not have any problems upgrading. I didn't have any plans of running the 6 and 12 GB sets simultaneously because I thought there would be some sort of memory density/timing issues.
New RAM desired: Corsair Dominator with DHX Pro Connector and Airflow II Fan - DDR3 Memory Kit (CMP12GX3M3A1600C9)
Old RAM in system: Corsair Dominator with DHX Pro Connector - 6GB Triple Channel (CMP6GX3M3A1600C8)
Request 1: Can I mix the 6 and 12 GB sets (for a total of 18GB) if I keep the density the same across each set of slots? There are 3 black (primary) and 3 blue (secondary). I was thinking of putting the 12GB in black, and 6GB in Blue.
I placed the order, received it, and went to install it yesterday. Took the existing 6GB out and dropped the 12GB in, saw that BIOS recogized it with the right timings, and proceeded to boot Windows up. Blue-screen at the very first Windows logo. I thought "well that stinks, let's check to see if the RAM is defective through MemTest." Downloaded an ISO of 4.2, fired it up, and it hung right away. Hung in the "Address Test, Own Address" test. Big fat A note: BIOS and MemTest both recognized the full capacity of the sticks.
My next thought was "Well, one of them might be bad, let's try to find out which one." I individually put each one in the first slot on the board, ran MemTest, and showed 0 problems on any tests with each of them.
Summary thus far: Individually, each 4GB stick works perfectly. In combination, they fail. The full 3x2GB set works perfectly.
My next theory was that my board might be bad (even though the 3x2GB set in the same slots has no issues). Knowing that the first slot was good with every bit of memory I put in there, I left a 4GB stick in slot 1, and dropped a 4GB stick in slot 2. MemTest hung again. Thinking it might have been that one stick, I put the other one in there, and it hung also. So, slot 2 looks suspect. Move the sticks to 1&3, and they look fine, but that still leaves me missing 4GB of RAM.
I've followed advice and re-seated the CPU, looked for bent pins (none found), and tried manually setting the timings to the 9-9-9-24 that is printed on the sticks. No luck with any of that.
Request 2: So, my question to you is what am I missing? I feel like the board is the problem, due to the slot 2 problem with the 4GB sticks. However, my 2GB sticks don't have any problems at all in the same slots. Could the 4GB sticks require a little more power that my board might not be pushing out (the board is labeled at 1.5V, the sticks are labeled 9-9-9-24, 1.65V)? Would a bent pin be causing this that my eyes just cannot see? I read somewhere that a guy had a pin that was 0.25mm off that was causing his problems.
Or should I be looking at the memory? The 3x2GB set works fine, but the 3x4GB does not.
I'm not sure what my next step should be other than replace the RAM first, motherboard second. The RAM I just got, so I could RMA it if I knew exactly what the problem was. The motherboard is approaching 3 years old and presumably is out of warranty. I wouldn't mind replacing it, but I don't want to spend money right now if I don't have to.
I don't have a second machine to test on, although I'm trying to locate one (most of my friends don't build custom PCs). I have also tried putting the 6GB in the black slots and 12GB in the blue, but the machine doesn't work with that configuration either.
Request 3: Could someone explain how I could aim for 1066MHz on my RAM? I read that on the X58 Pro-E that this resolves most problems with random bluescreens. When I try to do this, I get lost in the numbers/options within the BIOS.
Anything else I might be missing? I'm out of ideas
Thank you all so much for the help!

Hi and welcome,
You have 2 "bottlenecks": the processor and the mainboard.
http://ark.intel.com/products/37147/Intel-Core-i7-920-Processor-8M-Cache-2_66-GHz-4_80-GTs-Intel-QPI
Max Memory Size (dependent on memory type) : 24 GB
Memory Types : DDR3-800/1066
Memory Channels : 3
Max Memory Bandwidth : 25.6 GB/s
http://www.msi.com/product/mb/X58-Pro-E.html#/?div=Detail
• Supports six unbuffered DIMM of 1.5 Volt DDR3 800/1066/1333*/1600* (OC) DRAM, 24GB Max
As you can see, above 1066MHz you need to overclock both the processor and the mainboard.
I think for your config the best shot is 3 x 4GB DDR3-1333 (9-9-9-24 at 1.55-1.60V)

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