I have no experience with Intel branded boards, but it sounds like you might have had a bad flash when you tried updating the bios. Like Shadowmonk
said, try pulling the cmos battery and jump the clear cmos jumpers for around an hour or so (just to be sure) and then install the battery back and unjump the clear cmos jumper and see if she will boot.
If you do go shopping for a new board, I would recommend that you buy one with the P45 chipset as they run higher fsb speeds better than an X38 or X48 chipset board with these Yorkfield quads. The fsb flexibility is nice to have even with the unlocked multi your QX9650 has.
BTW, my old Gigabyte X38 board has run my QX9650 just fine and is good and stable for the last 1 1/2 years or so. That Gigabyte board you were looking at in an earlier post would probably do you well with yours.