Thanks for the interest but you clearly did not read the whole exchange.Either the hekate_ipl.ini file was deleted or overwritten since there is no other way the issue you described would occur. You were fairly vague on the details on how exactly you updated so I suspect that is where the issue lies.
I gave a very detailed (almost boring to re-read) explanation of every step I took. I was not vague at all. I did not erase or overwrite anything I did not back up. The file was not there. I am almost maniacal in my file hoarding and I have an original backup of the SD the first time I set up Atmosphere; the file is not there also in this case. It might be about something with the file compiler for the sd (sdsetup.com) that I originally used following the guide on which I had very little power and may have caused the issue. It might also be the case that I skipped many updates and was running quite old versions of both FW and ATMs. Whoever works with repositories would tell you that "no way the issue would occur" is just an inexact statement. True files do not "disappear" but plenty of agents and codes can impact files archives. I also used a mac that I discovered recently mess with archive bit. Anyway, again thank you for your interest.