I had exactly the same issue, exactly as described by the original Reporter.
I should mention that I dug a hole under the main portal in The End too (to get the dragon egg) – maybe this hole breaks something in the game.
And I have the same issue with the duplicating portals on the outer islands (I got there building a huge long bridge from the main island, that was the only way for me because I didn't have an elytra).
I still play that map with my son sometimes, so I can provide any useful information if needed.
Doesn't work for me either, it's literally unplayable now in VR. And I spent hundreds of hours in Minecraft in VR before this issue. Win10 Oculus Rift S.