The Lokians have been defeated. O'Hara has gone AWOL. His spec ops team has been disbanded and reassigned. The President of the North American Union is working with aliens. Gray-Human hybrids are controlling the Earth from sights unseen, but hope is not lost.
After recovering on Eon, Admiral Lay warned O'Hara of an impending threat, and the young captain left the new planet behind him as he flew through space-time with Adams and Franklin, agents of The Bureau. Now, The Bureau has a new mission for Riley O'Hara, and it involves the Gray Agenda...but what, exactly, is the agenda of mindless, alien drones?