However, speaking ahead of his side's trip to Newcastle United on Saturday, Hughes suggested that the touchline clash at the bet365 Stadium had been blown out of proportion.
"Handshakes are neither here nor there," the Welshman told reporters. "We should move on.
"Maybe after the game the media department at Man United switched on to full mode and got involved and didn't do Jose any favours, to be perfectly honest.
"I don't need to comment on it much more. Too much was highlighted after the game by their media department with a view to maybe cementing Jose's position. But I think they did him a disservice really... we have all moved on, it was something of nothing."