Divergence ( episode ) With " Columbia " s help , the " Enterprise " crew grapples with sabotage to their ship as they pursue the truth behind the kidnapping of Phlox . ( Part 2 of 2 ) Summary . Teaser . With 47 minutes to a potential reactor breach on , Archer forms a plan which involves freeing Reed from the ship ' s brig . Thirty minutes from a rendezvous with , Reed notes that the transporter won ' t operate at warp , so he ' ll have to transfer Tucker while at warp speed . As the Klingon watches , Reed explains that he transferred personnel at only warp speed one and after several simulations ; but they have little choice . T ' Pol is working on calculations to merge the warp field s of both " Enterprise " and " Columbia " , but the ships have to be less than fifty meters apart . Archer says that Ensign Mayweather can handle the flying , so long as Reed can bring Tucker safely aboard . Reed muses that Archer will have to let him out of the brig . Act One . As Tucker says he ' s ready to go , Captain Hernandez contacts " Enterprise " , as the ship has matched " Enterprise " s speed and trajectory . Reed is in Launch Bay 1 on " Enterprise " , and tells Archer that " Columbia " can start their rotation . With the " Columbia " nearing final position , Archer tells his crew to brace for warp field contact . The two ships shake momentarily , and Reed tells Mayweather to hold the ship steady , or " " Chef ' ll know who to blame for the mess in the galley " " . T ' Pol heads to engineering to prepare everything for Tucker . Reed fires the tether across , and Tucker begins his trip over . Reed notes that the tether is tightening , as T ' Pol detects a fluctuation in the warp field . Mayweather then begins to have trouble maintaining a good distance from " Columbia " . Tucker asks what is happening , but Reed tells him he ' s doing fine , before realizing that he has to hurry up . T ' Pol is unsuccessful in diverting enough power to the warp field , and Tucker is released from the tether just before it snaps . Tucker can think of only one way to fix the warp engines : a cold start . Shutting down the engine will reset the algorithms , and when it restarts , the subroutines will be back to normal . Archer points out the flaw – but Tucker says that " Enterprise " will have to enter " Columbia " s warp field . They will only have a minute or two , but Tucker has thought of a shortcut . Instead of decrypting the subroutines – which would take hours – Tucker suggests purging them completely . Heading for engineering , Tucker notes the two MACO s outside the launch bay . Reed says he has had a slight misunderstanding with the captain , and heads back to the brig much to Trip ' s confusion . Gathering all the stats on the engines , Tucker notes that someone " " hasn ' t taken very good care of [ them ] " " . T ' Pol suggests he " " speak ( s ) with the Klingons " " . Tucker tells the science officer to take note : he is about to perform a manual shutdown and restart in less than two minutes . T ' Pol declares that it ' s not possible . " " Watch me " " , he replies . Hernandez contacts " Enterprise " , and informs them that they ' ve routed everything they can to the warp field , but asks Archer for a favor : " " Make this quick . " " Archer gives Tucker the go - ahead and the engineer performs the shutdown procedure . As soon as the nacelles power down , Tucker sets the engineering crew to work . Hernandez tells them they have less than a minute . With mere seconds to go , the warp engines spark into life and the extended warp field collapses , but " Enterprise " is warp - capable again . Tucker asks that " Enterprise " drops to impulse , so he can look things over . Archer asks Hernandez and " Columbia " to stick around for a while . Back on Qu ' Vat Colony , Doctor Antaak finds Phlox in his cell , who has been brutally handled by the general and his men . Phlox tells Antaak to " end it " , and contact Starfleet , as he refuses to create Klingon Augment s , " " living weapons " " , as he puts it . Antaak however has been looking over Phlox ' research , and has found a weakness in the virus . Phlox notes that he ' s right , but K ' Vagh wouldn ' t get his Augments , and would therefore refuse the doctor ' s treatment . Antaak thinks they should do it without telling the general , who will eventually find out , but Antaak notes that saving millions of innocent lives would give them both a more honorable death . Act Two . Reed is taken , rather forcefully , to his quarters where Archer is awaiting him . On his screen is a picture of , and Reed complains that Archer has gone through his personal files . Archer has used the database to identify Harris , who worked in Starfleet Security until 2149 . Reed says there is nothing more to add , but Archer replies that that is unacceptable , as Reed has put every member of the crew at risk . Saying he is only following orders , Archer retorts that he ' ll go to Starfleet and blow open the whole conspiracy if he has to . As Reed doesn ' t know any more , Archer tells him to contact Harris , so he can find out himself . Antaak and Phlox are comparing family histories , and Antaak sees that Denobulan mating practices must be " " very complex " " . Phlox asks the Klingon about his family , and the older man replies that his own father disowned him when he became a healer . He then blames himself for the Augment virus , and Phlox is there ultimately because of his failure . The Bird - of - Prey with the Klingon Augments aboard it arrives back at the colony , and Laneth reports that the " Enterprise " was destroyed , and Starfleet will believe it to be a catastrophic engine failure . K ' Vagh sees that one of them is missing : his son . Laneth says that he was killed by the Humans , and it was therefore without honor . K ' Vagh checks up on the two doctors , who report excellent progress . Phlox claims to have found the " switch " that will " turn off " the virus ; he will have it within the hour . K ' Vagh contacts , who tells him that his project has been shut down by the Klingon High Council . K ' Vagh argues that all their research will be lost if the colony is destroyed , so Krell gives them three days , or Qu ' Vat will be destroyed . On " Enterprise " , Tucker says he ' ll help out a little in engineering – more specifically , help the vessel ' s new chief engineer , Kelby . He then asks why Reed is in the brig , but Archer says he can ' t go into it for the moment . Tucker decides to head back to " Columbia " , and T ' Pol offers to walk him down . On the way in a corridor , T ' Pol asks him if Tucker is having any problems , specifically with sleep but he says that he ' s fine . He asks if she is sleeping well and she awkwardly replies that she is and then promptly leaves him . K ' Vagh returns to the lab and tells Phlox they are running out of time and the Denobulan asks how K ' Vagh ' s son contracted the virus . The Klingon reveals that they tested the virus on prisoners first , and when they had none left , Command chose a unit to be experimented on – the unit in which his son belonged . As his son asked for no special treatment , he was given none by K ' Vagh . Reed is tucking into his small dinner in the brig , but Marab , the Klingon next door to him , refuses to eat his meal , objecting by throwing his tray against the wall . Reed questions the Klingon need to fight , but he replies that anyone questioning that need would be imprisoned , if not killed . As Reed notes that that ' s not the way things are done in Starfleet , Marab believes that the Klingon Empire will defeat them because of it . Reed however , notes that the Klingon is sharing the same brig as he is . Laneth and her shipmates are all becoming weak as a result of the virus , and that they ' ll stay together – as comrades – until they die . K ' Vagh tells them that Phlox is working on a cure and they will all be healthy again . Laneth wonders if their appearances will be the same – otherwise they will be outcasts as other Klingons won ' t accept them for the way they are . She also tells the general that she felt fear in the battle with " Enterprise " for the first time since she was a child , and thinks they are all becoming weak like the Humans . K ' Vagh assures them that he will not let the Empire turn their back on them as long as he is alive . Archer is sitting in his quarters with Porthos , who is " missing Phlox " as well – and undoubtedly , his " stash of cheese " . His line of thought is broken as Harris contacts him through his desktop monitor , telling him that Phlox is on a mission of great importance to Starfleet . As they would never allow the kidnapping of one of its personnel , Harris directs Archer to Article 14 , Section 31 of the Starfleet Charter . Archer guesses the Klingons are involved , but Harris insists they talk about Reed , who has done some good work for them over the years . Archer informs Harris that Reed was put into an impossible situation , but Harris replies there ' s more to it than just one captain and one ship . If Phlox is stopped from completing his mission , the repercussions will affect entire worlds . Phlox holds four strains , one of which has the genetic trigger to stop the virus before it becomes lethal ; unfortunately , he doesn ' t know which one . He will need a week to check , but as Krell won ' t extend his deadline , Phlox must infect four healthy Klingons . K ' Vagh , Antaak and two guards are in the room , so the general advises Phlox to infect them instead . In Archer ' s ready room , Reed is explaining to the captain why he joined Section 31 as a young ensign . He hasn ' t done any work for them since before joining " Enterprise " . Archer shows him the medical scans of Marab , and thinks that it is a military experiment that went wrong . Harris also claimed that a cure needed to be found in order to create a more stable Empire for Starfleet to deal with . Reed confesses that he wanted to tell Archer anything , so the captain tells him to decide where his loyalties lie . Although Reed doesn ' t know where Phlox was taken , Starfleet Intelligence knows that there is a genetic research facility on Qu ' Vat Colony , and that is a good place to start . Act Three . Archer reinstates Reed , who returns to the bridge much to the surprise of the bridge crew . " Enterprise " is six hours from Qu ' Vat Colony , and Reed recommends that " Columbia " withdraws to a safer distance so that Klingon patrols don ' t have a single target . Phlox asks K ' Vagh why he chose to pursue the Augment project , when Soong failed . The general replies that Soong ' s only mistake was making only a few Augments , and that Klingons have discipline – although Phlox points out that Augments don ' t . Preparing the final strain , Phlox injects K ' Vagh with it , and the general asks if bloodwine would affect the results . Phlox doesn ' t believe so , and the Klingons begin to drink . K ' Vagh offers him some but Phlox refuses , saying he never imbibes while on the job . Archer is interrogating Marab in sickbay , who is becoming ill like his shipmates . Remaining defiant , Archer tells him that if he won ' t help them , he can at least help his own people . Marab agrees . Phlox is taking scans of Laneth , who has become bed - ridden when Antaak enters , saying that the guards are displaying the first symptoms of the virus . Phlox also scans Antaak , but the look on his face tells all : K ' Vagh has the cure , and Antaak will die . Phlox assures Antaak that if they work quickly enough , he too can be cured . Krell is enjoying a bowl of " gagh " when Harris contacts him , saying that the Klingon failed to stop " Enterprise " or " Columbia " . Krell orders Harris to withdraw both ships , but as Harris has no authority to do that , Krell would rather destroy them . Harris reminds Krell of the arrangement and that it would benefit both Starfleet and the Empire , but Krell laughs it off , saying that Harris believed him . As Antaak prepares to extract the cure from K ' Vagh , Archer enters the room , phase - pistol at the ready . Marab enters behind him , to the astonished K ' Vagh . Archer announces his intentions to retrieve Phlox , to which K ' Vagh insists that the Klingons need him – at which point the doctor cuts both of them off , since he can speak for himself , and asks Archer for a few more hours to cure the virus . K ' Vagh is furious that he will cure the virus rather than perfect the Augment genome as he ' d promised , but with the captain there to back him up , Phlox informs the general that he was lying . Reed ' s sensors pick up the three Klingon warships in orbit , but communications to " Columbia " are jammed . On the surface , an alarm makes the Klingons aware the ships have arrived , and Archer has no luck contacting " Enterprise " . Krell informs that that the colony will be eradicated , against Archer ' s objections , claiming he has a " more effective solution " . Phlox speaks directly to Antaak , transmitting details of the anti - virus , but Krell says his orders are clear , claiming both " Enterprise " and " Columbia " as property of the Klingon Empire . Act Four . Krell gives his tactical officer orders to proceed , and to leave nothing standing . His battle cruiser enters a lower orbit and begins to fire on the colony . " Enterprise " attempts to disable the enemy ship ' s disruptors , but is constantly drawn away by the two birds - of - prey . The " Columbia " arrives on scene , taking up a position behind the birds - of - prey , attempting to distract them while " Enterprise " disables the battle cruiser . Phlox says he will be able to finish creating the cure quickly if he has a Human host to replicate enough antibodies . Archer notices he is the only Human there , and knows the risks . Sitting down on the chair in the middle of the lab , Phlox straps him in . " Columbia " disables the engines on one of the Klingon ships as their shields begin to fail . Phlox informs Archer of the possible side effects he will get from being injected with the virus . On " Enterprise " , Sato manages to cut through the jamming signal , but as Archer isn ' t available , Phlox talks to them instead , asking them to protect the colony until his work is complete . T ' Pol orders Mayweather to place the ship directly between the battle cruiser and the colony , and orders Reed to increase power to the hull plating . In the lab , K ' Vagh looks on as ridges appear on Archer ' s forehead . The Klingon battle cruiser attempts to throw off " Enterprise " by shifting orbit , but the Starfleet ship stays with them . Finally breaking through the interference , T ' Pol asks Hernandez for help , only to find that " Columbia " has lost its weapons . At Qu ' Vat , Archer breaks free from his restraints , so K ' Vagh holds him down while Phlox extracts the antibodies . During the process , Antaak has prepared a canister containing the virus , and sends it to Krell ' s ship , infecting its crew . On " Enterprise " , Reed notes that they can ' t hold their position for much longer . Phlox speaks to Krell , telling him the contents of the canister , but Krell believes he ' s lying . Phlox tells him to either check his internal sensors or wait half an hour – which is when the first symptoms will appear . Krell brands it a cowardly attack , but Phlox says that if the cure is destroyed now , he too will die from the virus , unless he orders his ships to stand down . Reluctantly , Krell agrees . Antaak is in " Enterprise " s sickbay , having been treated successfully . He complains that his targ won ' t be able to recognize him now that he has a smooth forehead , which he calls a disfigurement . Phlox tells him he did his best to correct all his mistakes , which is all he could ask of himself . As he realizes his superiors will most likely end his career as a geneticist , he will have to find a new specialty – maybe in cranial reconstruction , something Phlox believes will soon become very popular . As Phlox goes to check on the captain , Antaak stops him for a moment , and thanks him for all that he did . Archer is recovering , although he feels like having some " gagh " . Phlox says that his cranial ridges , along with his cravings for Klingon cuisine , will disappear within a few days , but Tucker says he should keep them – as he looks intimidating . Thanking Hernandez for her help , Archer thinks that at least one of them should do some exploring . Tucker says he will be staying around for a little while longer which , T ' Pol muses , will make Kelby " delighted " . Tucker reminds her it will only be temporary . Reed is in his quarters , quietly reading , when Harris contacts him , thanking him for his work . As the conversation progresses , Reed tells Harris never to contact him again , but Harris tells him that recruitment policy dictates that no one can just walk away . Reed ' s reply is simple , he answers to one man alone : Jonathan Archer . Cutting Harris off mid - sentence , Reed returns to his reading . Memorable quotes . " " Hold her steady , Travis , or chef ' ll know who to blame for the mess in the galley . " " " " What ' re they here for ? " " " " The captain and I have had a slight misunderstanding . " " " " How slight ? " " " " These gentlemen are here to escort me back to the brig . " " " " Do you understand what will happen if the general learns that we ' ve deceived him ? " " " " A cure would save millions of innocent lives . What more honorable death could there be for a healer – Klingon or Denobulan ? " " " " Denobulan family units are different from Klingons . " " " " Ah , yes , I ' ve heard . Three wives for each husband – three husbands for each wife . Your mating practices must be very complex . " " " " Wondrously so ! " " " " What ' d they give you ? " " " " It ' s dead – I can ' t eat that ! No wonder you ' re all so weak . " " " " General Sun Tzu said that the greatest victories are those won without fighting . " " " " The Great Kahless said there ' s no victory without combat . " " " " Re - read the charter : Article 14 , Section 31 . There are a few lines that make allowances for bending the rules during times of extraordinary threat . " " " " What threat ? " " " " Take your pick . Earth ' s got a lot of enemies . " " " " The ethics , Doctor , are simple – three lives to save millions . " " " " I need a little more time to cure this plague . " " " " Cure ? ! You were supposed to perfect the Augment genome ! " " " " I lied . " " " " I suggest you power down your weapons , admiral , and let me cure your people . " " " " I doubt my superiors will allow me to remain in my position . I ' ll need to find a new specialty – perhaps cranial reconstruction ! " " " " I have a feeling that ' s about to become very popular . " " " " I answer to one commanding officer : Jonathan Archer . " " Links and references . References . 2149 ; antivirus ; Augment s ; bloodwine ; cheese ; Chef ; cold start ; D5 class ; Denobulan s ; Earth ; ethics ; engineering subroutine ; Eugenics Wars ; fleet admiral ; " gagh " ; general ; genetic engineering ; genetic research facility ; genome ; House of Antaak ; ; Kahless the Unforgettable ; Kelby ; Klingon s ; Klingon Augment starship ; ; Klingon Empire ; Klingon High Council ; Klingon Imperial Fleet ; medical scan ; metagenic virus ; millicochrane ; Qu ' Vat Colony ; RNA ; Section 31 ; ; Starfleet Intelligence ; Starfleet Charter ; Starfleet database ; Starfleet Security ; " targ " ; tether ; transporter ; Tzu , Sun ; warp field ; warp matrix