The funny thing is I'm pretty sure Logan is still encased in adamantium. Scott verify.
Which means when the universe was recreated and all those trillions of things were brought back to life and suns were recreated and shit, that they recreated a runny adamantium statue with a man inside.
Doom gets his face. Cyclops gets to not be burnt dust and not get burderened by Phoenix power. Wolverine's a gargoyle watching his name dragged through the mud.