Immediately after his debacle with Nomad, he is abducted by a Ceph scout and dragged off into the jungle in the same manner as Jester. He then tells him that he has no idea whats going on and that he was sent to find these people and that's what he is going to do. This startles Prophet as he is used to Nomad taking orders without question and being utterly obedient. Later he regroups with Nomad, who also begins to question his superiors motives. Prophet proceeds to vaporize his suit and continues forward with the mission. They finally manage to find him but it is too late as he was nothing more than a mangled corpse on the side of the mysterious mountain. After Prophet and Psycho's argument, they hear a thunderous roar in the distance suddenly, an Ceph Scout blasts from the other side of the boat, abducting Jester and dragging him off into the jungle. He then proceeds to order Psycho to "can it" after he questions their true motives for being on the island and argues that Prophet knows more than he's telling him. He later regroups with Nomad, Psycho, and Jester, who have made a startling find: a boat completely frozen solid in the middle of the tropical island.
Prophet leads Raptor Team through their first few objectives, the first being to find Aztec who was separated from the rest of the squad only to be informed by Jester and Nomad that Aztec was torn to shreds (along with a North Korean patrol) by an unknown hostile he then incinerates his suit via remote and orders the two to stay on mission. However, because of Nomad's rank, Strickland assumed complete mission control. Later at Lingshan, after he was temporarily MIA, Nomad, being the second-in-command, temporarily took Prophet's role as squad leader. Barnes was set free, but in return he had to do a favor for Hargreave he was the first soldier to try on the Nanosuit 1.0, where he met Nathan Gould. At the maximum-security prison, he received some documents sent by Jacob Hargreave. Since he was to be put in Leavenworth federal prison, he figured he should "really earn it" and proceeded to beat up everyone in the room. When he was reprimanded by his superiors, he lashed out at them too. Angered by the deaths of innocents, he hospitalized his CIA supervisors by beating them to a bloody mess. At some point, he took part in a CIA-backed drug raid in which civilians were killed. A seasoned veteran of Operation Desert Storm and Operation Enduring Freedom during the War on Terror, he spent years in schooling before joining the US Army.