Do you have more context? Are you actually trying to use apple_pay, or it that just an irrelevant error you're not expecting?
When you say "everything work flawlessly under Firefox" - Did you actually go through the entire process, and eventually received your payment? Or do you just "don't get any errors" there? Cause it would seem kinda weird as well if the Stripe dashboard says apple_pay is not enabled, but apple_pay does work...
Are you targetting the same Stripe account, and both in the same mode? "Test Mode" vs "Live Mode" - in both browsers? "Test Mode" might complain less about permissions or something - Just making sure