I'm having kind of the same problem here... can't boot without jumper clearing CMOS now.. i will be very happy if i could work around this with some fix/BIOS update, any help is welcome.
It is a long story but at least i got it working, thing that the "tech experts" on a store said to me that both PSU and mobo were dead:
It all started during a major thunderstorm, several consecutive power failure harmed my computer in a way that it appear with power on, lights and fans were on, but no response on video.
As soon as i saw it, i disconnected the power cable.
Later after the strom i tried to start the PC again, no good response, just the mobo Power and Reset Buttons were flicking, no fans, no post.
Next step was taking it to a "reparing computer house", they told me the above, they tested the disk drive separatedly and told me it was working ok. But i was not convinced about the fact that both PSU and mobo were dead (i deal with hardware and breadboarding since 13 yo or something close to that, but hadn't done anything related in the last 10-12 years) and took the PC back.
Then i read the entire mobo manual to see if anything mentioned the flickering, no good.
Researched the internet, about this flickering, and some solved threads were talking about a short somewhere, mostly the USBs.
Well, i admit that my front USBs are not working propperly, but now they are not even plugged in. Both my mouse and keyboard are PS2 and are working well, no problems at all.
That lead me to strip the entire computer, and troubleshooting like in the old days, first i tried mannually see first if the PSU was working well, thanks to a post here ( i believe its called something like THE THINGS YOU NEED TO KNOW ABOUT BEFORE POSTING ABOUT MOTHERBOARDS.. and so on... ok, with this i was able to get the short-clipper papper on the green and ground wires of the PSU and, the test fan WORKED.
Whenever PSU connected to the board (yes, with the 4-CPU pin also plugged in) i only got the flickering, no post, no fans (not even the one that comes built in the PSU).
Then i wanted to see if any PSU cable was fried or not working properly, got myself a Multimeter and all the readings were stable and according to the values of the same post that help me a lot in going further.
Then i tried pretty much everything, and i suddently found out that the speaker only had one cable connected, the other one was loose, so, i run to my old stuffs and got a working one (tested it before i tried on this mobo).
The response was always the same flickering, cleared BIOS, removed battery, removed EVERYTHING (besides the CPU itself) and only left connected the essential - no post, no fans, flickering.
OK... so, i thought, i'm missing something here.. what if i provide the mobo some real power? And this time i made a short in the top of the connected PSU powercable, green and black wires).
Power on.. VOILA!!! something that worked.. the fans! and the post about missing hardware! (video card in my case)..
Bad thing is, i can't take out the short from the powercable or the mobo won't start at all. And the side effect is that everytime i need to shut it down i have to do it turning the PSU off), and everytime i need to get it running i have to do the clear CMOS trick (tho i believe this step would be unnecessary, if the BIOS could save my settings, and i see no good reason not to, i will explore it later, i have a guess that its related to the SATA/IDE/HCIA (cant recall the last one correctly), but its the only option i need to change in BIOS after the clear so i can get inside windows 7, if i just press F2 (wich takes it to IDE mode), it wont do, blue screen after loading something.
Yes, i also belive that somethings not good within the, i just havent found out what, right now im working on it, and writing this on the same computer that was declared not good to live another day!!
So, i'll be posting the news (if any) about my progress here and also will be watching you guys if any flash EZ/BIOS update/change firmware will work
Good luck!