From your description it sounds like re-jetting the carbs would be in order. You can contact Vance & Hines on their support page and I would think they would have a recommendation on what jet kit to use. Probably a good time to give the carbs a good cleaning while they're off as well.
Synchronizing your carbs is fairly simple. The Honda shop manual will give you detailed instructions. (You can also do a bench sync while the carbs are off which will get them working really close.)
Synchronizing your carbs is fairly simple. The Honda shop manual will give you detailed instructions. (You can also do a bench sync while the carbs are off which will get them working really close.)