QFlash should update the Main BIOS not the Backup BIOS. You may have to power down the PC and use the switch on the Motherboard to use the Main BIOS chip at Startup, if you switched it to the Backup Chip when you first encountered problems.
If you wish to copy the Main BIOS to the Backup Chip you need to press the "F10" & "Alt" keys together when you power up the PC as you would press the "Del" key to enter BIOS.