That is the thing that worries me with all these meta search sites. No one is announcing who they don't search. So when someone like Kayak gets in a fight with AA, and they disappear from the listing, you better hope you notice it and do your search somewhere else that has AA. Or all this fancy technology is for naught.
There are still holdouts like Southwest so the whole search one and done mantra has not been fulfilled. I do appreciate that Hipmunk is trying to do something different and they recognize clearly that the status quo was "not good enough".