If you swapped the inputs as well as the outputs of the coils and both coils came up good then I'd say you're down to the pick up coil gap or the igniter. Buy the $5 gasket and pull the right side cover and insure that gap is 0.8mm; you really want to eliminate all other items before you go for a replacement igniter. Right now is when you want a friend with a spare or an identical bike you can borrow an igniter from.
