Not a replay expert or anything even remotely close, but I started this past year learning the replay tech position. From what I saw, the RO/Communicator roles conversations with the crew can vary, depending on the crew. Some RO/Communicators are very engaged and actively provide 'helpful' information as to 'hey guys, the RO likes the 31 better, instead of the 32' (where the crew spotted the ball, etc.), correcting numbers on foul announcements, etc., they are just giving information to the crew and they can use or not use that information. Other crews didn't really provide that kind of feedback on an ongoing basis; it really seemed to be whatever the on field crew wanted.
I don't recall a single time this season where replay tried to correct a foul status like the one you described (because there was never anything like that, that occurred, while I was up there), but had they realized it, I think most replay officials would notify the crew. They can't make them change it, it's up to the crew to decide whether to take that information or not, so I wouldn't assume that replay wasn't trying to give them information.