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Clear and Present Danger

A United States Coast Guard vessel intercepts and boards an American yacht in the Caribbean Sea and finds evidence that the ship's owner and passengers, American businessman Peter Hardin and his family, were murdered by the piloting Colombian crew. CIA analyst Jack Ryan learns that Hardin was laundering money for the South American Cali Cartel, the leader of which, Ernesto Escobedo, ordered Hardin's murder for embezzling millions in drug profits. U.S. President Bennett, Hardin's close friend, discreetly authorizes National Security Advisor James Cutter to initiate covert operations in Colombia to destroy the cartel.

Ryan is appointed acting Deputy Director of Intelligence when Admiral James Greer undergoes treatment for pancreatic cancer. Ryan requests Congress to increase funding to support Colombians fighting the drug cartels, giving his assurance there is no U.S. military involvement, unaware that Cutter will use the funds to assemble RECIPROCITY, a special forces team recruited by CIA operative John Clark and aided by Robert Ritter, the CIA Deputy Director of Operations. President Bennett sends Ryan to negotiate with the Colombian government to allow the United States to seize Escobedo's assets, including $650 million hidden in off-shore accounts, while Escobedo's intelligence officer, Colonel Félix Cortez, secretly orders the Cartel to ambush Ryan's convoy. Ryan survives the fracas, though several colleagues are killed, including Dan Murray and FBI Director Emile Jacobs. Cortez's identity is ascertained after he murders Jacobs’ secretary, Moira, who was an unwitting informant.

Blamed for the attack, Escobedo organizes a meeting with the other Cartel heads. RECIPROCITY discovers this and launches an airstrike on their gathering, though Escobedo and Cortez, en route, barely escape unscathed. Cortez learns Americans were responsible and brokers a deal with Cutter: Cortez will kill Escobedo to assume leadership, then will reduce drug shipments to the U.S. and allow American law enforcement to make regular arrests to influence public opinion on the United States’ declared war on drugs. As part of the exchange, Cortez wants the location of RECIPROCITY disclosed to him and all CIA support to RECIPROCITY eliminated. Clark's team is stranded when Cutter accepts Cortez's deal, and are overwhelmed by Cortez's mercenaries in the jungle.

U.S. surveillance monitored Cutter’s conversation with Cortez unbeknownst to him and Ryan accesses Ritter's computer to obtain evidence regarding the illegal Colombian operations. Ritter, however, warns Ryan that because he secured funding for the operation, Congress will hold Ryan solely responsible, revealing that he and Cutter have been granted President Bennett's pre-emptive pardons from any wrongdoing. Greer succumbs to his illness and Ryan flies to Bogota after the funeral to seek out Clark, unaware Cutter and Ritter have led Clark to believe that Ryan betrayed RECIPROCITY. Clark captures Ryan, but teams up with him when he realizes Ritter and Cutter played them both.

Ryan and Clark procure a helicopter and fly to RECIPROCITY's last known position, where they find team sniper Chavez, who reports that most members were killed, and learn Captain Ramirez and one remaining squad member were captured. Ryan meets with Escobedo and informs him of Cortez's deception, while Clark simultaneously commences the rescue of his men who are being held captive in a coffee facility fronting Escobedo's cocaine operation. Escobedo confronts Cortez but is killed by Cortez's associate. Chavez kills Cortez during the escape, and Ryan narrowly escapes along with Clark and the freed prisoners.

Back in the United States, Ryan refuses President Bennett's request to help cover up the conspiracy and instead testifies before the Congressional Oversight Committee about the recent events.