The MCU films dont acknowledge the tv shows so I dont see why it would be a big deal. The audience is smart enough to realize its a different role, especially considering most of the movie going audience didnt watch Punisher. Besides its been cancelled, so its not like there would be any ongoing confusion
Bernthal is too old anyway so its all a moot point. I cant see Marvel hiring a man who would be in his mid 40s when the films come out to launch the franchise with.