I feel the opposite on the reincernation, it's the most important element that sets IDW apart from other TMNT versions, and it also has a lot of potential in storytelling, because you can always introduce new things from the past, which ones gonna shape the present, and due to the reincernation thing it won't feel that detached or out of the blue.
Like how it happened with Kitsune. Her inclusion was probably not planned since day one, but still, her role in Shredder's past doesn't feels like a cheap and forced retcon they had to do to advance the story.
Plus, one thing I always liked about the reincernation, is that it still keeps the origin story as kinda "ridicolous". With Splinter and the turtles reborn, and remembering the past, remembering the martial arts, that makes it more logical, but at the same time they are "reincernated feudal ninjas in anthropromorph mutant animal form, and they fights against a feudal ninja lord, who wants to take over New York, and made immortal using a technology by interdimensional aliens". So the backstory is still a lot a madness.