The medical Frigate that Ahsoka is on is similar to the Tantive IV, Princess Leia's ship from the opening of Star Wars: Episode IV - A New Hope. Additionally, the sleeping berths on board are similar to the prison cells on the Death Star.
Ahsoka sleeps with her lightsaber under her pillow.
Mace Windu's efforts on Dantooine and Kit Fisto's familiarity with Ord Cestus are two minor nods to the expanded universe - namely, the first Star Wars: Clone Wars (2003) micro-series where Mace fights a droid army on the plains of Dantooine, and The Cestus Deception novel featuring Fisto. However, their inclusion in this episode should not be construed as confirmation of how these EU events occur in relation to "Brain Invaders".
The 'Jedi fortune cookie' message that opens the show reads "Attachment is not compassion".
Series Trademark: Ahsoka says "I have a bad feeling about this one."