The Daytona "Twin Tech Tuners" (i think thats the name) are not very popular on this forum (or so it would seem from some searching), but they can be used to make your Buell run better with the modifications you have mentioned (Jardine, K&N). Without the Twin Tech, your bike would run too lean and would eventually lead to the problem you fear (premature engine wear). If you have your dealer tune your ECM (not your TPS--that means "Throttle Position Sensor", and will NOT address your lean running condition at all), that would be a good thing, provided the dealer is familiar with tuning Buell ECMs for performance upgrades. Otherwise, your Daytona Twin Tech is adjustable and can be adjusted to enrichen your fuel mixture and reduce the amount of backfiring.
I would try to find an owner's manual for that unit and learn how to use it.
Hope this helps.