One flagship was dispatched to Tirol under the command of Commander Senep and directed by an Invid Brain after the loss in communications with the Invid garrison on the planet. This vessel would be destroyed by the crew of the Farrago in a surprise assault which saw the defeat of the Invid forces. Another flagship was used by the Regent's forces in an ambush of the Sentinels at Praxis.
After engagements with the Robotech Expeditionary Force, the Regent created a clone of himself to be used as an ambassador to the Humans. The actual Regent would later use the flagship as his transport that orbited Haydon IV and departed after he was defeated on that world by the Sentinels.