Putting aside how it fits into Epcot for a second, how will this ride fit in with the MCU? Just trying to walk through this logically...
Only tangentially. For DCA's Mission:Breakout I think I remember someone at Marvel/Disney talking about how the story of the theme park is an alternate reality/timeline.
This is common for comic books where the comics themselves have alternate realities being published at the same time and the TV series and movies have different realities/timelines.
While SHIELD the TV series is part of the MCU, other Marvel TV shows aren't.
This is unlike Star Wars where they are usually very careful to make sure all media are as much in-sync as possible.