Whatever they do, they're going to have to make them relevant to exploration as opposed to just methods of transport if they really want EVERYONE onboard with chocobos. Perhaps make certain areas only accessible through the use of paths only chocobos can access, like bogs or other bodies of water with too much flotsam for bigger ships to pass through, stuff like that.

I'm pretty much already sold with chocobo combat and caravan escorts, so whatever they do after that is fine with me, of course they've already mentioned as much as being able to raise your own bird and equip it as you want as somethings they're trying to implement.