It was later revealed that NATO launched a massive aerial bombardment almost immediately after the main fortress's destruction. A pinpoint strike was executed on Outer Heaven's nuclear weapons facility using bunker-busting bombs. There were even reports of nuclear blasts in the aftermath, but the truth was hidden from the media, and very few people ever learned of what really happened.
Outer Heaven was wiped from the face of the earth, killing many within the area, regardless of their ties to the regime or not. The multinational forces deemed this as an acceptable loss since the war orphans and refugees were considered a liability in their eyes. However, some were rescued by Big Boss, who had managed to survive, along with any remaining mercenaries and Resistance members, the latter of whom he forgave for their earlier opposition to him.
Schneider also survived, despite almost being killed in the bombing. He was recovered by a NATO cleanup crew and taken to the U.S. to participate in a top-secret NASA project.
Big Boss later vowed that he and Solid Snake would meet again...