Did marvel studios remove any comic book plot points in their movies?

Quick Answer
The provided evidence does not indicate that Marvel Studios removed any comic book plot points in their Phase Two films.
Explanation
The sources supplied focus on the structure and production details of Phase Two of the Marvel Cinematic Universe, noting the films’ titles, the shared universe context, and the involvement of producer Kevin Feige and director Joss Whedon. They describe the sequence of releases—Iron Man 3, Thor: The Dark World, Avengers: Age of Ultron, and Ant‑Man—but contain no mention of alterations to comic book storylines or the removal of specific plot points. Without explicit statements or comparisons in the evidence, we cannot confirm that any comic book plot was omitted in these movies. Thus, based on the verified information, there is no documented evidence of Marvel Studios excising comic book plot elements from their Phase Two films.