mGBA Save Issue

Last night I created a thread inquiring as to a problem with being unable to save games in Visual Boy advanced.
Someone suggested I switch to mGBA and in this emulator, the issue did not persist so that was solved.

Well, I started playing Pokemon Stigma. I had a full party and was griding them up for the first gym and I save constantly including after every level each member of my party gained. I had to restart my laptop due to an earbud issue and now it'll only load an old save from hours ago when I was still at the beginning, had only 3 party members and hadn't even battled my first trainer yet apart from my rival.

The right save loaded just fine when I'd soft reset it without closing the emulator so what happened?
This sucks, hours of progress is gone!