Agent Michael Thorton is just been inducted into the "Alpha Protocol", a US military service whose operations technically do not exist. After being sent to assassinate the leader of a terrorist group, Thorton is left for dead when he realises that his real enemy is within the Alpha Protocol. Now, travelling across the globe, Thorton must pin down the conspiracy and bring to justice the forces that have betrayed him.
In this unique espionage RPG, players take on the role of a secret agent and perform clandestine operations, while making social decisions that can change the very course of their journey and turn allies into enemies, or enemies into allies.