The actor, who plays Owen, joined the show in 2008 and recently helmed a series of webisodes.
Entertainment Weekly says that he has now signed up to direct the thirteenth episode of the season.
Details of the storyline in the instalment are not yet clear, but the show is expected to air in February. It will be the first time McKidd has directed an episode of the main series.
McKidd's co-star Chandra Wilson, who plays Bailey, has also stepped behind the camera for previous episodes.
Grey's Anatomy continues on Thursdays at 9/8c on ABC.