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MAJOR SPOILERS
WARNING! This article contains MAJOR spoilers for the recently released novel Available Light. Caution is advised.

The Federation Security Agency or FSA was the civilian intelligence and law enforcement agency of the United Federation of Planets. (TOS movie: Star Trek III: The Search for Spock, TOS comics: "Old Loyalties", "Finnegan's Wake", DS9 - Typhon Pact novel: Zero Sum Game, TNG - Cold Equations novel: Silent Weapons)

The service was concerned about threats from Vulcans against Memory Prime after they learnt that one of the Adepts of T'Pel had been hired for a contract against a target on the planetoid installation. (TOS novel: Memory Prime)

In 2285, an operative of the FSA took Doctor Leonard McCoy into custody after McCoy began exhibiting erratic behavior due to his experience with Project Genesis and Spock's katra. The operative, who identified himself as "Federation Security", warned McCoy not to discuss Genesis in public, and after McCoy clumsily attempted a Vulcan nerve pinch, told him that "you're going to get a nice long rest, Doctor." (TOS movie, novelization & comic adaptation: The Search for Spock)

Situations where Starfleet personnel were the subjects of criminal investigations or were victims of crimes committed by other Federation citizens were Federation Security Legion matters. This detail of Federation Security was tasked with investigating such occurrences. In particular, it was mandatory for the Legion to begin investigations when any sort of assault against a Starfleet captain was made by another member of the service. James T. Kirk disliked these investigations, finding the Legion to be paranoid and overly suspicious.

Federation Security members Sean Finnegan and Heather Van Horne, both Legionnaires, were sent to Omicron Ceti to investigate the deaths of the crew of the USS Zephyr and several landing party personnel from the USS Enterprise-A. They were then diverted to the Enterprise herself after it was reported that William Bearclaw had made an attempt on the life of Captain Kirk. (TOS comic: "Old Loyalties")

As one of the Federation's primary law enforcement organizations, the Federation Security Agency operated a fleet of interceptors crewed by officers empowered to enforce Federation law in its territory. In 2384, one of its interceptors, the Sirriam, was destroyed by the Breen Militia during a routine patrol of the Komatsu sector. (TNG - Cold Equations novel: Silent Weapons)

FSA was also the Federation's primary civilian intelligence agency. Its military counterpart was Starfleet Intelligence. (DS9 - Typhon Pact novel: Zero Sum Game)

In this capacity, FSA collected and correlated political, military and social information on foreign governments. These specialists typically acted in information processing roles, they were also known to have performed counter-intelligence duties. (FASA RPG module: The Federation)

From 2381 on, an elite division of FSA known as the Protection Detail was also responsible for a unique duty: Guarding the safety of the President of the United Federation of Planets. (TNG - Cold Equations novel: Silent Weapons, ST - Destiny novel: Mere Mortals)

At one point, FSA was headed by the High Commissioner of the Federation Security Council. (FASA RPG module: The Federation)

By 2382, its leader was known as the Federation Security Agency Director. That same year, Rujat Suwadi of Zakdorn served as FSA Director. Later that year, he was called to a high-level meeting with Federation President Nanietta Bacco at the Château Thelian after a Typhon Pact spy successfully stole classified data on the Federation Starfleet's slipstream drive system from the Utopia Planitia Fleet Yards in orbit of Mars. (DS9 - Typhon Pact novel: Zero Sum Game)

Following the deactivation of the Uraei surveillance program and exposure of Section 31 to the public in 2386, the FSA was tasked with bringing many of its top agents to justice and keeping them in custody until trials could be held. These 31 agents were mostly held at the FSA Detention Facility in San Francisco, California.

Among the arrestees was William Ross. He was murdered by FSA agent Margo Dempsey in retaliation for the death of her husband Clark in a shuttle crash which had been engineered by 31 to assassinate a Federation diplomat. The FSA and Starfleet later determined that following her husband's death Dempsey had taken steps to ensure the information about her husband's death at the hands of 31 did not show up in the background investigations the FSA conducted of people who would be guarding 31 agents taken in to custody.

Following Ross's death, the FSA worked with Starfleet to revamp its procedures, with anyone who would be coming in contact with those 31 agents subjected to complete background checks. Further the list of people approved to have contact with these agents was limited and required approval from top officials in the Federation government. (TNG novel: Available Light)

The operative who takes McCoy into custody in the bar, in Star Trek III: The Search for Spock, identifies himself as "Federation Security". It is likely that this is the same organization.
In some of Federation Security's appearances, most notably in the comics, operatives such as Sean Finnegan wear Starfleet uniforms. However, they still identify themselves as Federation Security.

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