I'm my reading & online trolling, I have seen this issue come up at least a few times. The responce from people like Calfo, Borneman, etc. is that not all corals will show max PE at the same time. This can be driven somewhat by the species, environmental conditions, available food, etc.
The vast majority of my SPS, like 99%+ have maximum polyp extension during the day photo period. I have almost no PE after lights out. This, I assume, is being driven by the fact that I am not feeding my tank at night, and there is no reason for the PE.
I would agree with Karl's statement if we were talking in the wild, but in our tanks the corals are in a vastly different environment. They have no where near (if any) the amount of particualte food available as in the wild. They usually have no predators, except for what you bring home from the frag swap. I would believe that the PE would be driven by the individual tank conditons, rather than by what was suggested. I believe that this is what he may have meant by "Certainly, other variables come to play with polyps extension."