Ah ... I see.
No, you are not alone. As far as the BIOS related utilities, we are experiencing the exact same problems.
Looks like flawed BIOS utilities in EFI-mode for both the DP55KG and DP55WB boards (and most likely the other P55 boards too).
Your other issues (boot problems, S3 problems, etc) are unrelated. I had similar (but different) issues, but fortunately found a workaround for each of them (and they were indeed unrelated). I advise you to split up your problem report in multiple posts, one problem at a time.
After managing to flash to the 5936 bios, Windows can finally communicate with BIOS through UEFI !!! Thanks a lot Mr Intel !
That's working :
Intel Desktop Control Center
Intel Desktop Utilities
Flashing bios under Windows
All softwares which need access to bios information
But I have no more beep when the computer is booting...
Previous bios 5893 was awful and buggy, I was unable to boot on usb devices and flash the bios. I had to flash in recovery mode.