Augment Crisis The Augment Crisis was the name given to a series of events in May 2154 when war nearly broke out between United Earth and the Klingon Empire because of interference by the Augment s . Prelude . In the 2130s , Doctor Arik Soong stole a series of genetically engineered Augment embryo s ( left over from the Eugenics Wars ) from the Interspecies Medical Exchange facility Cold Station 12 . Soong was able to escape to Trialas IV and raise the embryos , acting as their father . Growing up , Soong taught the children about Human culture and what they needed to know , like a parent and teacher . Around ten years later , Soong was captured by Earth forces and imprisoned for his crimes , leaving his " children " to finish raising themselves . While he was gone , Raakin eventually became the leader of the little band of Augments . The Klingon threat . In May of 2154 , two of the Augments , Malik and Saul , managed to make it off - planet in a transport pod . They were picked up by a in the Borderland . The Augments managed to fight off the Klingon crew and ejected their bodies into space . They then took the Bird - of - Prey back to Trialas to pick up the other Augments . Raakin took charge of the Bird - of - Prey , but was killed by Malik in a power struggle , thanks to some assistance from Persis . The Klingons recovered the bodies of their dead crew from space , and DNA traces left on the bodies revealed they had been killed by Humans . Klingon chancellor M ' Rek threatened to retaliate with extreme force , but Earth Starfleet realized the DNA on the bodies matched that of Soong ' s Augments . Journey to the Borderland . Starfleet assigned the recently - refit to capture the rogue Augments in order to stop the threatened war with the Klingons . Captain Jonathan Archer called upon the help of a reluctant Arik Soong to help to capture the Augments . Upon crossing into the Borderland on May 17 , " Enterprise " encountered two Orion interceptors , which kidnapped nine members of " Enterprise " s crew ( including Commander T ' Pol and Ensign Jeffrey Pierce ) . With help of Soong , " Enterprise " was able to find the kidnapped crew on Verex III , an Orion processing planet for slave s . During the rescue , Soong nearly escaped . Though he was prevented , he did manage to transmit a signal to the Augments . " Enterprise " departed Verex , but the Orions caught up with the ship and attacked it again , causing damage to the engines . The Augments arrived in the Bird - of - Prey , responding to Soong ' s signal , and assisted in deterring the Orions . During a conversation with Malik in his ready room , Archer was taken hostage and used to retrieve Soong from " Enterprise " s brig . Archer was released and the Bird - of - Prey escaped with Soong . Confrontation at Cold Station 12 . Soong ' s goal was to revive the thousands of other Augment embryos at Cold Station 12 , and so the Bird - of - Prey headed there . The Denobulan shuttle " Barzai " was captured by the Augments and its pilot imprisoned . The " Barzai " was used to gain access to Cold Station 12 . When inside , the Augments had no problem incapacitating the guards . Accessing the stations environmental system s , all the scientist s on board were knocked out as the Augments took over the main command center . The scientists were imprisoned in the command center by the Augments . The station ' s lead scientist , Doctor Jeremy Lucas , was questioned by Soong as to the authorization code to access the embryos . When Lucas was unresponsive , one of the scientists was placed in a chamber in which Symbalene blood burn was released . Despite his colleague being in a large amount of pain and dying , Lucas did not reveal the codes . After some time , Soong released the antipathogen in the chamber , but it was too late : the scientist had died . Meanwhile , " Enterprise " was trying to discover where Soong had gone . Bereft of clues , the ship journeyed to Trialas IV , where they encountered an Augment , abandoned by his " siblings " , named Udar ( " Smike " ) . They also noted that incubators and artificial wombs had been removed from the planet , indicating Soong ' s intentions to recover more embryos . Armed with this information , " Enterprise " headed for C - 12 . When the ship approached the asteroid belt where C - 12 was located , the Augments located the ship and threatened to kill Lucas if " Enterprise " did not leave the field . Archer complied and " Enterprise " proceeded to leave the field . With another plan in mind , a boarding party was prepared ( consisting of Archer and Phlox , among others ) ; the party would beam aboard C - 12 right before " Enterprise " went out of range . The team was beamed over but still detected not long after their arrival when Phlox disconnected the life support relays to the command center . The " Enterprise " team was sent into the command center , but this time Soong put Doctor Phlox into a chamber to get Lucas to talk , as the two were old friends . This time , Soong was successful and Lucas gave the command codes , for which Soong released Phlox . " Enterprise " was hailed by Soong and told them that the boarding party had been captured . Archer managed to order T ' Pol to activate the station ' s auto - destruct over the commline . The auto - destruct failed due to a lockout by the Augments , and when the " Enterprise " was attacked by the Bird - of - Prey , " Enterprise " s engines were damaged again . Soong and Malik proceeded to the embryo chamber and prepared all of them for transport . Malik lowered all the containment field s for the pathogens on C - 12 ; Udar was killed in his confrontation with Archer . The Augments subsequently escaped the system in their Bird - of - Prey . Archer managed to stop the pathogens from infecting the command center , though the rest of the station needed massive amounts of decontamination . He ended up with a mild case of decompression in the effort . Soong deposed . Soong wanted to end the confrontation with " Enterprise " by raising the embryos on a planet in Klach D ' kel Brakt , in Klingon territory . Malik , however , wished to confront " Enterprise " again ; the " father " and " son " also clashed when Malik learned Soong was trying to make the new Augments less violent . " Enterprise " caught up to the Bird - of - Prey and attacked it , almost crippling the vessel , but Soong devised a plan and put the pilot of the " Barzai " back into her shuttle and dropped it into the atmosphere of a planet . With " Enterprise " consumed with a rescue mission , the Bird - of - Prey was able to escape . Malik talked with Soong afterward , telling him he had created a biogenic weapon using pathogens from C - 12 . He planned to drop it on the Klingon Qu ' Vat Colony and spark a war between Humans and Klingons to distract them from the Augments . Soong greatly disapproved of this idea , which enraged Malik even more , prompting a mutiny . Soong was confined to quarters while Malik took command . Persis helped Soong to escape the Bird - of - Prey in an escape pod in hopes of finding " Enterprise " . Malik later killed Persis when he learned what she had done . Commander Tucker altered " Enterprise " s warp signature to Klingon specifications to chase the Augments through Klingon space ; however the ship inadvertently passed into a restricted star system governed by . With the Klingons demanding to inspect the ship , Archer bluffed them into believing they were transporting the chancellor from talks with the Orion Syndicate . Shortly after that , " Enterprise " found the pod with Soong on board . Soong revealed Malik ' s plan , giving even " Enterprise " further impetus to catch the Augments . The " Enterprise " encountered a Klingon battle cruiser , which knew they were Starfleet . A battle ensued , but " Enterprise " dropped out of warp and used its grappling hooks to damage a nacelle on the D5 . With the other vessel incapacitated , " Enterprise " continued on , with Soong ' s guidance . Battle over Qu ' Vat . The Bird - of - Prey arrived at the Qu ' Vat Colony with " Enterprise " only about a minute behind . The biogenic torpedo was prepared and fired , just as " Enterprise " arrived at the planet . Malcolm Reed targeted the torpedo and launched a few photonic torpedo es ; fortunately the Starfleet torpedoes were swifter , and the biogenic weapon was harmlessly detonated above the atmosphere . The Augments then retaliated against " Enterprise " , causing major damage to the armory . At Soong ' s instruction , " Enterprise " targeted a section of the Bird - of - Prey that lacked dispersive armor with their only phase cannon and caused major damage to the other vessel . Malik , despite entreaties by Soong , overloaded the dilithium matrix and destroyed the Bird - of - Prey , killing the last of the Augments . Malik somehow made his way aboard " Enterprise " in a last attempt to kill Soong , but he was shot by Archer and finally died . Resolution . Satisfied by the actions of " Enterprise " at Qu ' Vat , on May 27 the Klingon High Council agreed to not retaliate against Earth . " Enterprise " returned to Earth for repairs , and Soong was sent back to prison . Soong told Archer that he thought perfecting Humanity through genetics was not possible , and that the answer might lie in cybernetic s . Interestingly , in the 24th century , Doctor Noonian Soong ( a descendant of Arik ) created several functioning android s . Aftereffects . When the Klingons investigated the battle at Qu ' Vat Colony , a number of embryos were retrieved . The DNA of these embryos were used by the Klingons in tests to make Klingon Augments . Unfortunately , this resulted in the outbreak of a dangerous virus that threatened the entire species .