And yet it remains the only game is the series where's Batman's face moved and animated like that of a human being.
Blow off the Joker origin if you want, but the Red Hood segment was a welcome surprise for me. Origins also added something actually interesting to the Detective investigation segments, and really turned them into something more than timewasters and bread crumb following.
You're also wrong about the boss fights, particularly Bane, who got his first proper, non-shitty Boss fight ever in the series. Also enjoyed Deathstroke, Deadshot... many more. Sure nothing approached the Mr. Freeze fight from City...
...but then again Origins had the DLC for the origins of Freeze... Cold, Cold Heart. It's about the best piece of DLC for the entire game series and it never got a proper on-disc release.
My tune on Origins never changed. I thought the WB Montreal team did a great job, and I think people would be pretty upset if you put out the Uncharted Collection, but h yeah #3 didn't score as well on the Metacritic so fuck it. We all know that didn't happen because Uncharted was all from the same studio, whereas in this situation, a separate studio having worked on Origins seems to be the main reason it was passed over for this collection.
Whether the separate of talent and assets led to technical reasons why this is so, if it is due to "studio beef," we will never really know, I think.