Starfleet Intelligence Starfleet Intelligence was a branch of Starfleet responsible for gathering and analyzing information concerning neighboring powers in the galaxy , and for carrying out covert investigations regarding possible threats to Earth and , later , the Federation . Organization . Starfleet Intelligence employed agents for their field operations who were authorized to perform undercover investigations . Starfleet Intelligence agent s ( or " SI agents " ) reported to division heads who oversaw their agents ' missions . The head of the organization was known as the Chief of Starfleet Intelligence . ( ; ) History . 22nd century . In 2154 , Starfleet Intelligence was in possession of knowledge that the Klingon s were maintaining a genetic research facility on Qu ' Vat Colony . This information proved valuable to the crew of when attempting to rescue Doctor Phlox , who had been abducted by the Klingons . ( ) In 2155 , SI agent Gannet Brooks , posing as a reporter , reconnected with Travis Mayweather , with whom she had previously been engaged in a relationship , in an attempt to gather intelligence on the xenophobic terrorist group Terra Prime . When Lieutenant Reed discovered that Gannet had reprogrammed her universal translator to secretly eavesdrop on the conversations of the Coalition of Planets delegates , the crew of " Enterprise " began to suspect that she herself was a spy for Terra Prime and placed her in the brig . Gannet later confided in Mayweather that she worked for Starfleet Intelligence , telling him that she could not reveal her identity lest the actual Terra Prime operative find out . Mayweather , however , did not believe her until it was revealed that Ensign Masaro was the real spy . ( ) 23rd century . In 2268 , Starfleet Intelligence reported Orion smuggler s raiding the Coridan system for dilithium . ( ) Later that year , Starfleet Intelligence reported that the Romulan military was using the Klingon D7 class battle cruiser design for the construction of their own starship s . ( ) 24th century . In 2358 , Starfleet Intelligence classified and covered up an investigation into a mutiny on the , in order to conceal evidence of the testing of an illegal phasing cloaking device secretly developed by Starfleet Security . Twelve years later , Starfleet Intelligence , which had an operative in the Romulan High Command , learned that the Romulan s were attempting to salvage the " Pegasus . " Erik Pressman , who was captain of the " Pegasus " at the time of the experiment , and who had subsequently been promoted to rear admiral and been attached to Starfleet Intelligence , boarded the and mounted a mission to recover the " Pegasus " and the cloaking device before the Romulans . The " Enterprise " s first officer , William T . Riker , who served under Pressman as an ensign on the " Pegasus , " eventually decided to inform Captain Picard of the development of the cloaking device , which was in direct violation of the Treaty of Algeron which banned the use of such technology aboard Federation starships . Admiral Pressman was subsequently taken into custody , and Captain Picard surmised that the revelations of the conspiracy would lead to courts - martial of Pressman and several others in Starfleet Intelligence who were involved in the cover - up . ( ; ) In 2369 , Starfleet Intelligence came to believe that the Cardassian s were developing a metagenic weapon on Celtris III . This spurred Starfleet to send Captain Picard , Doctor Beverly Crusher , and Lieutenant Worf on a covert mission to locate and destroy the weapon , but it was later revealed that the Cardassians had set a trap for the explicit purpose of capturing Captain Picard . ( ) In 2370 , Starfleet Intelligence provided the " Enterprise " with information concerning Arctus Baran ' s " Theta " - class raider , which was raiding ancient Romulan archaeological sites in the Taugan sector . ( ) " That same year , in an alternate timeline , Starfleet Intelligence learned of a massive deployment of Romulan vessels along the Neutral Zone , in response to a temporal anomaly discovered in the Devron system . In response , Admiral Nakamura ordered a fleet - wide yellow alert , and assigned the " Enterprise " and several other ships to respond to the Romulan deployment . The timeline in which these events occurred was later negated , and the events in question " unhappened , " when Captain Picard managed to prevent the formation of the anomaly from occurring . " ( ) Late in 2370 , Benjamin Sisko had Starfleet Intelligence bring in suspected Maquis members for questioning to find out who could have been the recipient of a delivery of photon torpedo warheads stolen from Deep Space 9 . ( ) In 2371 , Starfleet Intelligence prepared forged transit documents so that the could travel to Cardassia to rescue Major Kira Nerys . ( ) Later that year , a friend of Odo from Starfleet Intelligence , who had once been assigned to the Federation embassy on Qo ' noS , put Odo in touch with a former agent of Klingon Intelligence . ( ) In 2372 , Intelligence believed that the Maquis were planning to hijack a shipment of industrial replicator s that were bound for the war - ravaged Cardassian Union . It turned out that this information was accurate , but Intelligence failed to discover that there was a traitor working aboard Deep Space 9 – Michael Eddington . Eddington managed to make away with the entire shipment . ( ) In early 2373 , Intelligence discovered that Gowron had relocated Klingon military headquarters to Ty ' Gokor . ( ) Some time later that year , Starfleet Intelligence made some progress in breaking Maquis communication codes . ( ) Another time later , Odo had Captain Sisko arrange a conference with Starfleet Intelligence via subspace . ( ) A short time later , Sisko told Kira that Intelligence would be extremely pleased about the information on Cardassian politics when she performed the shri - tal with Tekeny Ghemor . ( ) Later that year , Sisko contacted Starfleet Intelligence to get confirmation that the Romulans had signed a non - aggression pact with the Dominion . ( ) In 2375 , Chakotay and Tuvok entered a restricted area of Terrasphere 8 , Species 8472 ' s recreation of San Francisco . Ensign Gentry stopped and told them that all unauthorized personnel in the area had to be debriefed by Starfleet Intelligence under the orders of Admiral Bullock . Later , Bullock claimed that the reason why their Federation database contained no mention of Species 8472 was classified by Starfleet Intelligence . ( ) " In an alternate timeline , Intelligence discovered a Borg temporal transmitter in the wreckage of a Borg cube in the Beta Quadrant sometime between 2375 and 2390 . " ( ) Dominion War . During the Dominion War , Starfleet Intelligence was more important than ever , playing a crucial role in gathering information about the Dominion ' s operations and infrastructure . One of its biggest coups was the location of a Dominion sensor array in early 2374 , which the Dominion had been using to observe allied operations across five sector s of space . ( ) During the breaking of the war , Starfleet Intelligence had a number of prominent agents . The chairman of the Romulan Tal Shiar Koval transferred valuable military intelligence and Glinn Lasaran from the Cardassian Union also served as an important agent . ( ) One branch of Starfleet Intelligence was the Department of Internal Affairs , which was charged with keeping track of Starfleet operations to ensure that no security leaks occurred . In 2374 , Luther Sloan posed as an agent of Internal Affairs while he was testing Julian Bashir in a fake holodeck scenario . ( ) Also in 2374 , Vice Admiral Fujisaki served as the Deputy Chief of Starfleet Intelligence , but died of " food poisoning " according to Sloan . ( ) An undercover operation using Miles O ' Brien infiltrating the Orion Syndicate on Farius Prime discovered it was colluding with the Dominion to arrange an assassination of a Klingon ambassador to damage the Federation - Klingon alliance . Chadwick of Starfleet Intelligence subsequently warned the Klingons and the attack was repulsed . ( ) One of Intelligence ' s greatest failures during the war was the neglect of the Dominion ' s buildup in the Kalandra sector , from which the enemy launched a fleet to invade Betazed . The Dominion managed to capture the entire planet in under ten hours , because of the lack of warning . It was one of the most humiliating defeats of the war . ( ) Later events . In 2379 Captain Picard or his staff requested information on Shinzon , newly the Praetor of the Romulan Star Empire , from Starfleet Intelligence . The agency was only able to provide him with partial data of Shinzon ' s military service record . ( ) Appendices . Background information . Ronald D . Moore commented , " " There was a time when you couldn ' t even mention Starfleet Intelligence on the show – and I kept sneaking it into scripts – and finally people sort of stopped caring . " " ( " " ) Apocrypha . According to several novels , including " The Lost Era " series of novels , Uhura was recruited for Starfleet Intelligence shortly after the events of , eventually rising to the rank of admiral and serving as head of Intelligence .