Of course you would. And then you'd have your choice of losing BO3 or THY3. You see in this case APO3 is being used to buff the damage of both of those abilities during an alpha as well as its usual perks. CRF 1 is just an afterthought in this build as cannons are subpar due to their "Hello I'm here shooting at you please raise your defenses!" quality. So we sorta need APO3.
I mean unless you wanted a more escorty build. Like lotsa cannons and no beams. Maybe even no torpedo fire involved. In that case I really couldn't argue the relative merits of those abilities. Seems like you could just spend a few hundred million on doffs and use one copy of omega full time. But I have no experience fighting a bop as an escort so I'd have to bow out of that discussion.