Processors are notorious for heating up with applications that cause them to process a lot of information. I would imagine that Google needs the processor to work hard to keep up with the changing screen as you move, and pulling maps and other info off the storage device. In addition, the GPS is now working using the processor to keep the location updated via satellite signals.
Now I would also wonder about the cooling. mflynn already hinted at the newer faster processors heating up more, but I would also wonder about the cooling efficiency when the unit is mounted in a dock. Since the phone uses passive cooling (no fans) if the back of the phone is snug up against more plastic, can it cool efficiently as it does if that extra thick layer of plastic is not there?
More questions than answers....