Personally, I wouldn't object to having only one of those giant aetherytes in every zone (there is really no need for more than one in any zone). Then, put those littlle mini aetheryte in all the little outposts in Eorzea.

For example: Southern Shroud, put a big one in either Quarry or Tranquil, and put a mini one at the other one and at Buscarron's place.
Or for Coerthas, have the big one at Dragonhead, and put the mini one at Whitebrim and the Observatorium.

I don't mind riding the bird, but I wouldn't object to faster options if they were made available.