sends three operatives from their Phantom Unit, Billy Bishop, Sheila Crawford and Nicklaus Nightwood; onto the roof of Castle Wolfgang in Austria.

Eve, SEA's commanding officer, informs them that the terrorist group Enigma is inside the castle, and they must be stopped before they can utilize their bio-weapon "Lahder".

Inside, Bishop and Sheila are confronted by the real Dietrich, as well as Enigma's anonymous leader and a group of guards.

The player is heading a covert investigation into NanotechDyne Inc, a pharmaceutical company suspected of developing biochemical weapons.

The SEA needs to access files on the computer of the new Research Director, Forrest Kaysen, who recently displaced Dr. Alice Coleman.

Kaysen has been linked to the Metropolis' owner, Kelly Wong, and Phantom must observe a meeting between the doctor and the businesswoman.

Disguising themselves as Troy to enter the plant, the player destroys the payload and sets out to escape before US forces bomb the facility.

The player chases and then battles Lysander before Nicklaus fatally shoots him, allowing them to secure Coleman and escape.

Bishop, Sheila and Samuel are then sent to the Rodt Rose Railway Station in Austria to resolve a hostage situation caused by Enigma.

Bishop and Sheila track Nicklaus to an Airbase, where he intends to flee, now revealed as double agent for both Phantom and Enigma.

Nicklaus uses a flash grenade to escape, prompting Bishop and Sheila to chase him as he boards a plane and starts down the runway.