Echo and his team, namely the clone troopers Nemec, Fireball, and Gregor, flew the ship during an attack on one of the Imperial Advanced Science Division Gozanti-class cruisers around 18 BBY. The Remora destroyed the cruiser's engines and hyperdrive units, it also provided cover for the secondary vessel until it successfully boarded the cruiser. Later, Echo took the Remora to Pabu to rendezvous with his former squad, Clone Force 99. Having rescued Omega and Crosshair from Imperial imprisonment at Mount Tantiss, the squad joined Echo on a mission to Barton IV to decrypt data off a datapad Omega had taken with her from the Tantiss Base.
After their mission to Barton IV, Echo dropped off the Bad Batch on Teth, where the Underground's base of operations was located, before taking the Remora to a rendezvous to meet Gregor. After picking up Gregor, they returned to Teth, learning their base had been discovered by Imperial forces. Echo flew the Remora to an extraction point, where Rex, Howzer, and the Bad Batch boarded the ship and escaped their pursuers.