I got the new battery charged up and after a bit of cranking, she slowly came to life. There are a few things I have noticed.
1) It looks like some of the covers have been replaced by a previous owner, but instead of using gaskets, they opted for the redneck fix of using gasket in a tube. The round cover, and larger cover it attaches to on the right side of the bike has oil seeping from it. It's not a huge leak, but definetly something I will fix when I pull the engine.
2)There is definetly an issue with the front cylinder. As the mechanic stated, it is a bit hard to get started. When I have the bike running, you can feel the exhaust is hot from the rear cylinder, but just air blowing from the front. If you give it some throttle, the front cylinder will fire off an on, and "heavy exhaust" comes out the pipe.
I don't currently have a compression tester, but I plan on picking one up this week. Is there a way to test if the issue is in the valves, or with the rings? I've replaced rings on a 2 stroke before, but dealing with heads on 4 stroke will be a new adventure for me.