yeah definitely forget that.
i am assuming by conical you mean 'pod' type filters, and yes you will need to rejet. what's more it will be a process of trial and error. jets are cheaap though, so get a bunch and see what works, if pods are that important to you. if you want ideas on how to move a battery look up a fellah on here called steviemac, he has david copperfielded his bat-tree right nice.
good luck with the bike
-KK
ps- i am also assuming that sohc4 thinking will apply to your bike. in a perfect world it would, but you could be a victim of progress and there could be a 'kit.' out there.