"My method is to jump directly into the IAP code at f803"

When you refer to 'IAP code' I'm assuming you mean Atmel's bootloader?

Also, why 0xF803? Atmel's example code jumps to 0xF800.

"It may still be possible to do it anytime, but I don't have the time to look to what other SFRs are changed that I am missing."

Do you mean you want to reset all SFRs to power on defaults before jumping into the bootloader?