Part II covers the events of June 24 through 26, 2021. On June 24, the passengers of the second Air France 006 disembark the airplane and are processed by soldiers at McGuire Air Force Base. They are placed in a converted hangar, provided food and bathrooms, and then interviewed by PsyOps psychologists following a script provided by Adrian and Tina. The soldiers prohibit the passengers from contacting the outside world and monitor social media to keep the existence of the plane and its passengers a secret as long as possible.

In the meantime, biologists compare the DNA of the passengers with their counterparts, who are now under surveillance elsewhere, while engineers study the two airplanes; both sets are found to be identical. The passengers who landed on March 10 are older; two have died in the meantime, and another has since given birth. With video evidence from the two airplanes, the Protocol 42 security team pinpoints the moment the original Air France 006 is copied “like a photocopier” (161). General Silveria asks Adrian and Tina for theories; Adrian and Tina request a workspace, anti-sleep pills, a coffee machine, and more scientists to help them, including Adrian’s romantic interest, Meredith Harper.