Yeah, but the new timeline doesn't change what happened BEFORE the timeline was altered.
Khan was still exiled from Earth in the late 20th, early 21st century aboard the DY-100 Botany Bay. He's still floating around out there somewhere. So, while the ship could still be found (either by the Enterprise or another ship) I would really like it to not be the case.
I think all the Khan rumors started when Del Toro was originally announced as the villian and then they just continued.
Either way I think it will be good, but all the "predictions" out there on the interwebs is getting tiresome, hence why I said who I think he will be...I mean my outrageous claims are just as valid as everyone else's right? And especially the Emissary since we know that in his case time is non-linear.