You're really not in a position to say what RTD was thinking when he put a president-elect inthe middle of the action, it still makes no sense. And it's kind of funny that in Stan Lee's cameo at the end of the Avengers that he laughs at the concept of superheroes in New York. Split between Fox, Sony and Disney the MCU movies for the most part have been set outside of New York in many ways the MCU have gone out of their not to go to New York. Technically of course the X-Men are also set in New York. By setting the characters in New York fixed the city problems being mentioned in the Suicide Squad movie thread.
I wouldn't say they've gone out of their way to avoid the city. It was significantly featured in The Incredible Hulk, CA: TFA, The Avengers, Age of Ultron, Daredevil and Agent Carter. That's almost a third of the movies and more than half of the tv shows.
They have done their best to show that the MCU is a lot more than just NYC, but the MCU is still highly NY-centric.