Fixed the problem! A dumb oversight on my part :/ When I reassembled the bike I forgot to reinstall the choke crossover tube. I cut a piece of fuel tubing, put it in place and the bike kicked over and began to idle and hit on both cylinders like it should. Also, one of the spark plug boot ends was a bit loose so I trimmed up the wires and tightened the boot ends back in place. Thanks for the input guys.
Kilroy