I don't think that's how they went about balancing things. If the game advertised "freedom of choice" as one of its main features, Bethesda should accordingly balance around "freedom of choice" as well. If they advertised "freedom of choice" and balanced around classes, hoping that freedom would just magically happen, well then that is a pretty poor game design on their part.
I think there's plenty of freedom of choice. I'm sword and board, but I'm free to dual wield if I want, but I don't because I don't want to. I could care less if my sword and board does less damage, it's what I like doing so I do it, I don't demand equal dps with twohanders and dual wielding and archery or even destro, because I know that I'm getting extra surviability with my shield.