Releasing a CK doesn't absolve them. They had a lot of things right with previous games, but changed it all up so they could make more money. The burden of making their newer games as good as the older ones shouldn't be on us. it should be on them.
I don't think there have ever been NPC's that were as powerful than the main character in any TES game (the Tribunal, Divayth Fyr, and that annoying Bosmer in Mournhold come close, though you're able to overtake them quite easily with time), but Oblivion and Skyrim are proof that Bethesda is certainly headed in the wrong direction. The "powerful" NPC's in Skyrim, who are usually described as fearsome and awe-inspiring, are annoyingly weak, even on Master difficulty.
Yes, that is an issue. It has always been a problem of scale and presentation. Our character simply is always far too "special". For whatever reason, we end up being this nigh unstoppable thing that has to disappear between each game or else we potentially destabilize our next character so to speak.
It's really quite disappointing. We have all these figures of history and lore, heck even Alduin as an example...who should be powerful, terrifying even to our character, yet are just push overs. It gives the world a greater sense of meaning in my opinion, if there are at least a few, characters...that not even we would want to get on the bad side of.
And despite the fact we were meant to defeat Alduin in prophecy, he is still our antithesis. The opposite end of the prophecy. He should have in every way, been the dragon equivalent of our character.