If you look closely you'll notice that the new timeline is basically the old timeline repeating itself. My made this article explaining it:
Really the only things that repeat are
5. Danger room training with Sentinels
6. Charles and Erik's conversation from X1.
7. Logan's healing factor gets weakened.
8. Logan goes into depression.
9. Jean having a feeling that something bad is going to happen.
What do you think?