Another update on the situation, as it turns out ozone wasn't the end all solution to my problem. The odor ended up returning after a few hours, the ozone just masked the smell. Something I didn't consider hard enough was the fact that it also has an oxidizing effect on metals, so the small screws that hold the scratch plate in place ended up going from a shiny silver to a dark grey, same with the tuning pegs and frets, had to toss out the strings as well since they basically felt like playing with barbed wire. Luckily I was able to polish the frets down to their original condition using one of those fret rubbers, still, not a process I recommend you put your guitar through.
Removing smells from wood is a fools errand and outside of using really aggressive cleaning agents, bleach, ammonia or strong lacquers, your best bet is just to let it air out and hope for the best. Ozone doesn't penetrate wood so it can only work on smells that would originate on the surface, but the trade off simply isn't worth it. The entire process ended up being a learning experience.
I was afraid it would have the opposite effect and that the smell from the guitar would end up transferring onto the case.