Yeah I think they changed the ending theme for newer releases due to licensing issues. My sister watched NGE on Netflix and she was confused whenever I brought up Fly Me to the Moon.

The only disc that didn’t work when I tested them is the one that has something called “Evangelion:Death(True)2” and the End of Evangelion movie plus some bonus content – this is an AACS issue rather than physical damage so there’s hope that I can watch it eventually, just… not now.

Death:True^2 was a recap movie with some extra scenes IIRC. It was like watching an experimental edit of NGE. The End of Evangelion movie is really important to the original series though. Hope you get to watch it!