The crew is "attacked" by a species of alien that live in the human dream state. It is up to Chakotay, with extensive knowledge about the dream state, to save the ship and its crew.
While on shore leave on a planet of telepaths, B'Elanna is arrested for a murder that is blamed on her violent thoughts.
When Chakotay is stranded on a planet that is in the middle of a major war, he violates the Prime Directive by helping the soldiers that discover him.
The Doctor tries to improve his programming by incorporating traits from famous and historical people, but is soon overwhelmed by the dark sides of their personalities.
Janeway and Neelix return from an away mission to find Voyager adrift in space and the crew barely alive. They soon learn that the ship has been overrun by viral life forms that are rapidly growing in
Voyager must find a way to cross a region of space owned by a mysterious race of hostile aliens without being detected. Meanwhile, Torres and Kes must work quickly to save The Doctor when a malfunction in his program causes him to lose his memory.
Tom Paris begins evolving into a higher organism after achieving warp 10 in an experimental shuttle.
Upon discovering a cultural symbol drawn in the ground on a planet that was used by his ancestors to "heal the land", Chakotay tries to contact the beings his tribe called the "Sky Spirits".
During negotiations with the Karemma, the Defiant is attacked by the Jem'Hadar. After a short battle, the Defiant is left drifting in a hostile atmosphere, with Sisko critically injured. Meanwhile, the Jem'Hadar are still looking.
After Sisko is promoted to Captain, he and the Defiant crew are manipulated by a Changeling posing as an ambassador.
Worf's foster brother violates the Prime Directive to save an alien society whose planet is dying.
McCall is put in an uncomfortable position when Hunter uncovers evidence that suggests her boyfriend, an assistant DA, may be prosecuting the wrong person at a capital murder trial.
An accountant is killed and his wife wounded in an apparent home invasion. The investigation is hampered by the couple's traumatized teenage son.