To deny that Manhattan can dismantle the kryptonians is to deny the in-world mechanics of the movie the character comes from... it's the same thing people love to do in Neo threads.
Manhattan blows people up by removing their intrinsic field (the thing that holds matter together)... it has nothing to do with telekinetically ripping them apart, so a character's durability is irrelevant.
If you wanna ignore facts, that's on you.