Gideon returns in the second season as he continues to track down Grogu. "Chapter 12: The Siege" reveals that Gideon requires access to Grogu's blood, which contains a high 'M-count', for it to be transfused into a test subject. However, the experiments have thus far resulted in "catastrophic failure". Later in the season, Gideon apprehends Grogu and seeks to continue the experimentation, but the Mandalorian captures Dr. Pershing and infiltrates Gideon's ship. Gideon battles the Mandalorian with the Darksaber, but is ultimately defeated. As a platoon of Dark Troopers attempt to rescue him, Luke Skywalker arrives and destroys the droids. Gideon attempts suicide, but is incapacitated by Cara Dune. Grogu is taken by Skywalker to be trained as a Jedi.
