In the near-future, the Blacklight: Tango team has been sent to find recently missing Colonel Klein and his personal Blacklight team in the city of Balik. The country had recently broken out in war after the assassination of its president. The rebel group that had killed the president, The Order, is thought to have captured or killed the missing Blacklight team.

They prepare to attack the Order's headquarters when Blacklight Command informs them that the civilians have been infected with an unknown virus, causing them to attack everyone they encounter. As they engage The Order in combat, both sides are attacked by crazed civilians. Because the circumstances have changed, they are ordered to stop The Order at all cost.