So I took it apart again last night looking more indepth at the electrical situation near the cdi. Noticed that all of the cdi plugs were only in about 90% of the way, not quite enough to actually click the lock bar in but enough so that it was bent. Took them apart, cleaned the connectors out and reconnected them all the way in. I dont think that was the problem but good peace of mind. Took it for a short ride as yesterday it seemed like if I pushed it hard, thats what caused the problem but ran it through the gears and no issues so not sure whats going on now.