Ali wouldn’t even be the first actor to play different roles in the MCU. For example, Alfre Woodard, Clancy Brown, and Martin Starr have all double dipped. Woodard and Brown even jumped between the main MCU and the street-level Netflix MCU. Granted, Brown’s Surtur was entirely CG.
Personally, I think the best move for the Netflix characters is to treat those seasons like Marvel currently treats The Incredible Hulk. Everything happened, but we’re not really going to talk about it. William Hurt returned as Thunderbolt Ross and they just don’t sweat what he did before Captain America: Civil War. If Jon Bernthal and Vincent D’Onfrio just show up in Spider-Man: Home Cooked Meal, just play it off like they were always there and it’s nothing special.