I guess I was specifically referring to car engines which, aside from the Wankel, are the same basic idea (pistons turning a crankshaft) that's been around forever. Yes, the technology has improved out of sight, and there's been a number of significant innovations like you've mentioned, but I've never seen anything outside the piston/crankshaft paradigm take hold.
About 15 years ago I was able to tour the Orbital Engine workshops and have a look at their stuff and chat to their engineers. At the time (mid 90's) they had developed a two stroke car engine they had running in a bmw. The engine made more power and torque, used about 20% less fuel and was about 30% lighter than the one it replaced, yet nothing ever came of it. [0]
I'd love to see this stuff happen, but I think the problem lies not with the technologies but rather that manufacturers are too conservative
[0] bloody hell, I've found one of the cars and it's on the market at the moment http://www.carsales.com.au/all-cars/private/details.aspx?seo...