After a 2000km shake down run the bike seems to be running normal, thanks for the help, I went back and checked the plugs and they were set at .7mm gap instead of .9mm gap, so I gapped them correctly, I knew i should have checked them the first time, live and learn I guess, and tightened up the connections to the coils and that seemed to correct it, it is running good now once again.
now i just need to figure out why the two spot lights at the from decided to stop working, that will be an adventure for another day