Going to ask a stupid question..... Did you check your fuel pump out? If that bike sat forever the diaphram might be dry rotted and shedding small particles of the rubber it is made out of into your fuel system. Also, if you put an aftermarket fuel filter in make sure that the media will filter small particles. I run a Mr. Gasket clear filter and I know that it will NOT stop really small schmutz from getting to the carbs if I get contamination in my tank or if a fuel line gets messy internally. Just one more thing in a long line of them that can and will give you fits.