Wow didn't notice that. Well since it seems that the Goddess's magic manifests itself as advanced technology alot of the time (Fi, TP Temple of Time, Tower of the Gods, etc) and it seems the desert temple will be very technologically advanced, it seems that the desert will be very significant to the Goddess.
But that raises the question: If the bird in the crest represents loftwings, how can it be there when the world below does not know of the existence of Skyloft. If the crest was created before the worlds were seperated, then the future Skyloftians would most likely not have loftwings.