So basically Pucci reset the universe but then EMPORIO used weather report to make oxygen poisonous just as Pucci was about to kill him in his ghost room, then EMPORIO went to another parallel universe since Made in Heaven’s universe was undone hence why EMPORIO says my name is EMPORIO when talking to Irene(parallel Jolyne) also that’s why we see all the other characters such as weather,Irene,anakiss,Hermès,and we see irenes father(parallel jotaro Kujo) mentioned as well, hence why this ending is very depressing as EMPORIO is the last stand user and he basically gets trauma from witnessing his friends die,having to take a life,and having his friends not having stands which was the thing that held them together. Sorry for rough explanation