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Out of curiosity, is there any information concerning Captain Pellaeon's activities during Dark Empire and the return of the Emperor besides the vague references to him serving various warlords made in Darksaber?

We know little aside from Darksaber. According to the Essential Chronology, Pellaeon did swear alliegence to the reborn Emperor and that the Chimaera was involved in combat operations, but was abandoned during Operation Shadowhand. He would later reclaim it after the events of Starfighters of Adumar.