I attended a HOG event on the weekend and had a chance to speak one-on-one with Steve Phillips, Harley-Davidson Vice President, Quality, Reliability, and Technical Services. Several of us ended up discussing the heat issues with the new 96 motors and the 110's. Evidently Harley is working on a new catalyst (?) to allow the engines to run a bit cooler yet still meet EPA guidelines after 2010 - still air cooled. He stated that the Moco could not tune a bike similar to a SERT or other after market module, due to EPA. Same reason no true duals, etc. His response to the questions on heat were - get a pair of the heat shields. That was not that well received, not surprisingly. On the warranty questions on after market modifications - he said "may qualify". Depends on what has been done, how bike has been treated, etc. Some dealers honor some things while others do not, and he suggested moving it up the chain of command if a satisfactory resolution was not reached at the dealer level re: warranty.
Anyway, since he suggested the heat shields, it answered this question from the Moco's perspective.