From my experience, the caldera cone, with supplied stoves, are generally, pretty close to on par with the most efficient specialized alcohol stoves. That being said, a number of stove specialists, have met or beat the caldera cone numbers with their designs. Zelph has a couple of versions that meet or beat it no problem. I'm sure Tinny does also.
I'd really like to see a custom stove tuned to the caldera cones, because from what I've seen, the stove is very basic(read: inefficient), and relies on the design of the cone to hit it's good boil times. I've made a couple of stoves that out boil the cones I've used, but due to the stability of the cone setup, I often favor taking it for trips where I"m not cooking anything elaborate. Ironically, having tried those same stoves (which'll do 12-15ml boils of 500ml water), in the cone I have, they hit exactly the same boil times, with approximately the same fuel consumption, however it wasn't really any better performance than the default stove.