I tried that but after spending a whole day working on the project,we learned our chip doesn't need a bootloader. Somebody explained that it has something to do with not having a USB-to-serial conversion chip on our PCB if I remember correctly. We were led to using the AVR pocket programmer found here: https://www.sparkfun.com/products/9825
which let us easily upload the Blink sketch with no issue.
I do appreciate the help though. The Gammon tutorial does make up for a lot of the issues I was reading that dealt with uploading the Arduino bootloader.