Year Of The Monkey Cole and Ramse mend their broken friendship while on the run from the Army of the 12 Monkeys. And in the year 2043, Railly and Jones navigate an uncertain future as Deacon and the Twelve command the Temporal Facility.
Primary An attempt to destroy the virus alters the future, stranding Cole in the year 2016 with an unstable Jennifer Goines, who may or may not be his key to getting home. Meanwhile, Jones and Railly deal with the consequences of the changed timeline; at the same time, they contend with Ramse as the temporal facility's newest prisoner.
One Hundred Years Amid growing tensions, Cole and Cassie embark on their first time travel mission together, which brings them to New York at the height of World War II to track a dangerous, seductive member of the Twelve
Emergence Jones reluctantly places her trust in Ramse to bring Cole and Cassie safely home after they get stranded in the year 1944. As Ramse looks forward to this chance to atone for his sins, Jones explores the true nature of time with old Jennifer Goines.
Bodies Of Water Cassie and Jennifer must work together to save the future, while Cole makes a surprising move with Deacon.
Immortal Cole's partnership with Ramse is put to the test when they travel back to the 1970s to try to prevent the Twelve from murdering a disturbed Vietnam veteran with a connection to the Witness.
Meltdown Cole comes face-to-face with the Witness; Cassie's hallucinations undergo a chilling evolution; and the Temporal Facility becomes increasingly dangerous after the malfunctioning time machine brings back deadly visitors from the past.
Lullaby Jones comes to the disheartening realization that time travel is humanity's true enemy and that as its architect she needs to be stopped, and so she sends Railly back to the year 2020 with orders to undo all of it.
Hyena Jennifer Goines takes her power into her own hands in the year 2016 when she forms the Hyenas, a band of crazy compatriots, to take on the 12 Monkeys. With the help of Cole, an elaborate plot is uncovered to reacquire the virus.
Fatherland Cole has his loyalty tested when Ramse and Railly go rogue, embarking on an unsanctioned mission that sends them to 1961 East Berlin. Once there, they have murder on their minds as they search for an unscrupulous German doctor who knows the location of The Witness.
Resurrection Cole and Jones find themselves in the middle of a coup just as the destruction of the temporal facility appears imminent. Following a violent encounter that ends in unexpected tragedy, Cole is sent back to 1957 as the last-ditch hope for survival.
Blood Washed Away Cole and Railly attempt to stop the final paradox in the past. Meanwhile, Ramse, Jennifer and Deacon struggle to survive the apocalypse in a last-ditch effort to find the Witness.
Memory Of Tomorrow As Cole and Railly try to find peace living in the past, they encounter a mysterious woman with apocalyptic visions of the future, who tells Cole that his work isn't done and he must do the unthinkable to save the world.