I think that would be a good idea for the Federation. You have the BoPs for the KDF, The Weavers for the Tholians, the Attack Ships for the Jem'Hadar, the Advanced Romulan Drone Ship for the Romulans, and the Voth's Heavy Fighter. So why not give the Federation the ability to field the Aquarius as a hanger pet. Change the docking of the Odyssey Aquarius to a hanger slot and a carrier pet so the Odyssey could field two of them, and the Bortosqu's BoP to a hanger pet so it can field two of BoPs. This would make those ships on par with the Scimitar, Jem'Hadar Dreadnought CV and the Vo'quv. Of course this would mean that the Odyssey and the Bortosqu' would have to have a new third Universal console for its Odyssey/Bortosqu' set.
I would gladly trade in the pet console for a hanger bay. As a console, it is not worth the slot it consumes.
I was being sarcastic, but that's also my reasoning. With the sheer amount of universal consoles in this game, we've got to start thinning them out. Too many old ones are suddenly useless to everyone who's not a lore junkie.
It'd be beyond worth it to me. It's silly to have one of the coolest "hanger pets" being utterly worthless, especially when they come with a customized launch sequence and all the work that must have gone into that. My vote goes for a fused aquarius hanger pet on the Odyssey - as is the ship is outperformed by so many other cruisers and flight deck cruisers. Just look at the Voth Bastion Flight Deck Cruiser.. it outperforms the Odyssey in every single area aside from crew size (meaningless) and the loss of two cruiser commands (which isn't a huge deal really).
To be honest, I'd let the Odyssey keep its cruiser commands and give it the ability to launch a single Aquarius frigate pet (instead of the usual two). Make the pet fused (like the tempest's aft gun), so you can only use that one pet. In essence you get half a hanger bay, which would help make up for some of the deficiences of the Odyssey while still keeping it balanced and making using the pet not only viable but normal for all those using the ship.