Well... I don't really view Logan as a superhero or comic book movie. It has so little in common with its contemporary counterparts that it's IMO stretching the term to classify it as such. It's more of a genre piece done with superhero characters, much like The Dark Knight. The Dark Knight is a crime thriller/mob/terrorist movie with Batman in it, and Logan is a western road movie with Wolverine and Charles Xavier in it. There's also very little point of comparison for it: how many superhero movies have there been that have been definitively about facing the end, with no setup for sequels or spinoffs? That are deliberately melancholic, stripped down, character focused, not exciting and don't feature a wide, colourful cast or massive setpieces? Just in those terms only The Dark Knight even comes close, and even it is not without some bombastic action setpieces.
If we go by general consensus, then yes, I would say Logan is at least up there with The Dark Knight. But I never went crazy about TDK to begin with, and don't really think "I'm watching a comic book film right now". Logan is a fantastic film because it's a great film in general, and IMO attaching the comic book movie label to it is doing a disservice to its merits. It's also almost completely unique at this moment in time.