I've been investigation this closely of late, and there is a serious issue which make me highly wary of mixing in phones with Atmos, Logic Pro or otherwise. And that is...
...
the reverb! As in, both Apple's spatial audio and Dolby Renderer introduce various level of room reverb as part of the way to simulate the "spatial" in spatial audio*. But here's the kicker - since Apple continues to tweak their renderer, you can't count on this effect being true later on down the road after you've finalized your mix. It feels like an ever-moving moving goal post.
And the panning aspect of spatialization appears to be in a similar state: from what I've read, Apple has changed how they downmix Atmos for spatial audio in headphones, so apparently you can't count on those results when evaluating your mix in the cans, either.
Anyway, my plan moving forward is to stick with 7.1.4 speakers as the end-all-be-all mix, and only check in headphones for overall balance and tone (same as it ever was). If Apple or anyone else wants to continue to "tweak" the delivery format for headphones after-the-fact, then there's not much we can really do otherwise.
*Dolby DOES offer a way to turn off spatialization (and it's reverb effect) for certain channels like the LCR or whatever, but Apple ignores that meta in their renderer.