Well my theory has been proven incorrect.  With bios 1 on 1.09 and bios 2 on 1.10 the bios 2 side did start correctly twice but on the third try it post looped 3 times before loading windows.  I'm still leaning towards there being a communications error between the chipset and the bios.  I have also noticed that my chipset heatsink has heated back up just like the first board did and it is hot to the touch.  My coolermaster haf 932 has a very large side panel fan blowing on it and it's still hot so take it for what its worth.  I did double check my power connectors and everything was latched down and I did reconnect my 6 pin auxiliary power connector.  I've used ecs/eurone bargain motherboards that behaved better than this one does.  Too bad that evga doesn't have the engineers from abit and dfi working for them.  None of their boards would be like this one if they did.

Time to buy a new board.

Well this morning with 1.09 on bios 1 and 1.10 on bios 2 the first cold start of the day came up the very first time.  There is definitely a relationship between the bios versions on both sides that is affecting how it works.  I really wish that evga would send me a copy of 1.01 so I can roll back the bios 1 side to the version it came with and leave it alone.

Well I was trying to play a little bf3 after doing my homework and she locked up and didn't want to respond to the reset button.  Once again I had to hit it 5 times to restart which only took 2 post loops this time.  I'm hoping that I can get enough cash at xmas to buy an asus or gigabyte to replace it with because I need a board that will work like it's supposed to.

When was the last time you called tech support and just harassed them non stop?

Are you calling or emailing them?  I would call and refuse to hang up until you were satisfied with an answer at least.

You know something else came to my mind about the behavior I'm seeing.  Remember I posted in the x58 forums about raising the ich10 chipset voltage to 1.10 to stabilize the usb ports when everyone was having problems with it and then it became the standard voltage in the next bios update.  I think that I'm going to start playing around with the chipset voltages and see if that helps to stabilize this thing.  I have everything set to auto right now but when I get a chance I'm going to have a look in there.

Did you try typing it in?  I don't use the arrows normally, so maybe try typing 1.6 in?

A couple more observations that I have made are that if I boot from a usb key the bios never drops it or restarts during the boot process and it is being used in a front panel connector that is attached to the only usb 2 motherboard header on the board.  Also having just flashed back to bios 1.11 on the bios 2 side my mouse continues to freeze under the advanced tab when attempting to adjust the voltage to the PCH.  If I select it and start to make adjustments other than auto the bios will freeze up and I have to let it sit there for a minute or more before it begins responding again at which point I just set it back to auto.   Switching back to bios 1.11 did not improve my post looping problem over 1.10 and both of them now post loop 3 times on a restart before allowing windows to load.  This is completely unacceptable behavior for a motherboard to exhibit no matter what the brand is.
 
So to recap keeping the lower bios version on bios 1 which is the non removable motherboard chip and running on the higher bios version on bios 2 which is the socket chip the board behaves the best and that isn't saying much.  3 post loops is two too many and it should only take one posting of the bios to boot the system into windows.

And the other thing is that having to unplug all of my drives except for the boot drive in order to get the bios to allow me to use it in the boot order is just plain ridiculous.  With everything plugged in the sata controller page sees all the drives just fine but when you go to the boot order page the bios just picks a drive (never the boot drive) and will not allow me to select from the drives that are attached and seen on the controller page.  This is about as dumb as it gets not being able to select my boot drive from the drives that are connected.
 
People if you are reading this understand that this board is not up to par with previous evga products that I own and I will not stop until I get some positive results from evga on this matter.  The very fact that they haven't responded to my tech support ticket request says something to me when all I'm trying to do is get proper resolution to my problem with this board.  If they'd have stepped me up to the z97 ftw like I asked before sending in the first one under rma this problem might not be reoccurring right now but since they refused then here we are in the same boat with another z87 ftw that doesn't work right.
 
Every motherboard that I've ever owned from other manufacturers posts the bios just one time and then loads windows bar a driver error but this one just resets the bios during the loading process and loops over and over until it decides that it wants to not reset itself.  With bios 1.11 on both sides that was 16 loops and with 1.09 on bios 1 and 1.10/1.11 on bios 2 it has become 3 loops but I'm not holding my breath as it is subject to turn uber stupid without warning.

HRPuffnstuff
When I say that the boot order menu doesn't allow me to select my boot drive it only shows one of the drives that are connected and it seems to always pick my hitachi hd over all others.  Going to the sata controller page all attached drives are shown so there is a disconnect between what the sata controller page sees and what the boot menu offers for drives.

 
That's a very important detail you just mentioned... all this while, I thought you were saying that your boot drive wasn't being recognized at all.
 
If you scroll all the way to the bottom of the boot tab (past the CSM stuff), you should see a option for "Hard Disk Drive BBS Priorities".  There, you should be able to choose which drive shows up in the boot priority list.

I took my keyboard and mouse and moved them to the usb 3 ports on the rear and they work properly again so my usb 2 ports are fubar now.  EVGA this board needs to be replaced.

Well this morning it only took two post loops to boot into windows.  I might retry the usb 2 ports just to reconfirm what I've already witnessed from them.  I become less happy with this board with each passing day and I still haven't heard back from the support ticket that I submitted on it.

Well I was just surfing the web and listening to some music and this POS crashed.  It went through 8 post loops before it would boot windows this time.

I just spoke to Joey and an advance rma has just been started to replace this board with a z97 ftw.  Hopefully this will resolve my issue once and for all.