Atkinson, 46, will be the lead official when United visit City at the Etihad Stadium, where the latter look to jump ahead of their city rivals in the Premier League standings with a win.
Atkinson has refereed three United fixtures this season.
He was the head official for Manchester United’s derby victories in the 2009-10 season, both of which were won in stoppage time.
Atkinson also presided over United’s 3-2 victory at the Etihad Stadium in 2012
Neil Swarbrick will be the game’s fourth official.