chapter two: a new start
Waking up in that multiverse first 616 and many others are all having all of the same events that's happened in the old one only in those universe's in different ways with the exact same incarnations. This time nothing held back from anyone else, The Doctor being one of the Avengers team members. The Doctor and Tony Stark get along with each other and Loki and The Master would plan stuff and The Doctor and the would work out a way to stop them. All of the Doctor and his companions travels and excursions also happened along with the Avengers missions which include travels in the TARDIS as well.