Well, I think the story of Secret Invasion had to either be done big, or not be done at all. Trying to limit this story and its implications to a little show with a half dozen side characters undersells it and makes its impact non-existent.
My GF is very angry about the Rhodey reveal for instance. But had that been a major mic drop moment in a movie, I think it would've gone over much better. This show has so many implications for the wider universe, and not many people will have watched it to know about it. All I could say to my gf was "Don't worry, none of this will probably ever be mentioned again." Mayyyybe Armor Wars makes some joke about "haven't been myself lately" and moves on.
I'd honestly rather they limited the multiverse story to Loki, and had Secret Invasion be the next big Saga. Multiverse crap does nothing for me, whereas if handled right, the intrigue of the Skrulls could've been cool. If it had been plotted out well for the future back during Phase 3, they could've come up with cool reveals that didn't mess with important character moments from the past. There still would've been some retcons, yes, but if handled properly I think they would have been jaw-dropping "holy s**t" moments. Thinking back to the comic, when Wolverine died months before the event, and his body reverted to a Skrull, that was a major WTF moment that added mystery and hype for the event to come.
Instead, we get one character revealed to have been a Skrull, and then Marvels and everything else will probably just ignore the massive war the US just launched on an alien race and the fact that Emilia Clarke is now far and away the most powerful character in the Universe