In the game, players take the role of various characters for different missions. Among them are a sniper, Sergeant Tyler "Razor Six-Four" Wells, for long range missions and stealth assignments, a Delta Force operator, Private Cole Anderson, as well as a rebel, El Tejon, for missions involving direct firefights. The main plot centers around a highly trained special ops unit that is sent into the fictional country of Isla Trueno, whose democratic government has been overthrown by a hostile force.
Undercover CIA Agent Mike Rodriguez infiltrates the entourage of General Vasquez in order to set up a shot for the sniper-spotter team Alpha Nine. Killing the general would put an end to the regime on Isla Trueno. During the assassination attempt, Agent Rodriguez is compromised and captured, and General Vasquez escapes. After a series of missions, the assault team Delta Three, supported by sniper unit Razor Six Four, manages to free Agent Rodriguez from an enemy camp.
With Vasquez on the loose, Delta Three and Razor Six-Four are sent to set up an air strike on a cocaine plantation. After the successful destruction of the plantation, the evacuation chopper comes under attack and has to leave. Razor Six Four makes his way through enemy territory in order to reach the new evacuation point from where he is extracted.
Agent Rodriguez teams up with Sergeant Tyler Wells to steal plans of a nuclear warhead from an enemy camp. The mission is a success, but Agent Rodriguez turns out to be a traitor. He takes the data and leaves Sergeant Wells to be shot by the enemy. A rebel leader called El Tejon rescues Sergeant Wells, who then tracks down Rodriguez, kills him and retrieves the data.
Because the data files are incomplete, the Alpha Nine sniper-spotter team steals the rest of the data from the enemy. Together with Razor Six Four, Alpha Nine then eliminates Ernesto Salazar, General Vasquez' advisor. Decryption of the stolen data uncovers the location of a secret uranium mine on Isla Trueno. Delta Three and Razor Six-Four enter the mine facilities in an enemy truck, free the civilian workers and destroy the compound. To fully dissolve the now weakened regime, a second attempt is made to kill General Vasquez. Razor Six-Four completes the assignment successfully, and the game ends the moment Vasquez is struck by the bullet.