Bit of an update. I took it out today to test it. It started up just fine twice after fueling up. When I got home I tried it again and it failed to crank. I tried letting the clutch out slowly several times and it still wouldn't go. I tried turning the handlebars while trying and that didn't work. Finally I tried disabling the security system and trying that 3 different times and it finally fired. I think either the aftermarket security system is the issue or the fob isn't actually disabling it.
The problem with that is I never activate the security system so I don't know why or how it's activating.
Thank you for the suggestions and I will post another update once I remove it.