There is more than one way to update your BIOS. Updating your BIOS in Windows is the less effective method, as you have experienced. @BIOS is a Graphic User Interface (GUI, I.E. Windows, method.
My suggestion was to use the USB to update the BIOS by having the USB as the first bootable device. When the BIOS sees the update file, you will be prompted to update in a non-GUI environment.