Half a century after a catastrophic biological weapon decimated the global population, Neo Kobe City faces a new and insidious threat: artificial lifeforms called snatchers, who infiltrate society by murdering citizens and assuming their identities. Nobody understands the nature of these beings or their origins, only that they're multiplying within the sprawling artificial island. As Gillian Seed, an amnesiac operative for J.U.N.K.E.R., an anti-snatcher task force, players must pursue leads into the heart of this conspiracy while uncovering what connection Gillian himself shares with the very creatures he's hunting.