hi Karl
if you are going to do the whole set of mods you are talking about then a K&N would probably be a worthwhile addition; I think they do actually flow better and of course they are cleanable - I have them on my bike and they FILTER! You gotta clean them which means they are stopping stuff, and that is nice to know!
If you put in a bigger cam, free flow exhaust and maybe do something with the throttle body and a chip I would think the K&N would be a logical item to do too.
