I could be going off the deep end here but, I get the impression that chocobo's have a certain something that puts them ahead of egi's.

Like they are more "regal" or something? Arcanists have *dominion* over their summons and can control everything about them. It's a pact they make with the primal, I understand that but basically you are in control of them.

Chocobo's as expressed in lore and such, have a high standing (even though in one main story quest, it's mentioned that they smell of poop... lol). They are a very respected creature in Final Fantasy history, so I don't find it surprising that they are more of your buddy than your minion. You tell them what to do, sure, but I feel like, from a lore standpoint, they choose to follow you. Therefore, you can't micromanage them. Maybe that will change.