They're not included in the BL github README (which gives a link to a forum post), they're Windows only and they're also incomplete. I was able to work out how to set the fuses but I'm not sure how you flash the bootloader hex. This should be covered in the README along with instructions on how to do it with avrdude under at least Linux.
The README takes you here:
It tells you to set the fuses first and shows you the Atmel/AVR Studio device programmer window but it doesn't explain thats what it is or how where to find it under Studio, that would be helpful to Studio newbs like me.
The very vague instructions for flashing the boot loader amount to:
I presume this is done by going to Memory (under the device programmer window) then Flash is it?Then flash the following HEX: