Stardate: Unknown. 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.'

Stardate: Unknown. After finding a type of dilithium that can survive at a higher temperatures, Tom Paris comes up with the ingenious idea of attempting to cross the transwarp threshold in an attempt to find a way to get home faster.

Stardate: 49690.1. When Captain Janeway and Chakotay contract an incurable virus they are left on a planet that shield them from its effects. While Janeway searches for a cure, she begins to form a deeper relationship with her first officer. Onboard Voyager, Tuvok, who is now in command, faces a near mutiny.

Stardate: 50252.3. Voyager encounters a region of space owned by a mysterious race of aliens that would take 15 months to go around. Upon crossing the boundaries, a swarm of ships attach themselves to Voyager's hull - an act which drains the ship's power supplies and threatens to destroy it.

Stardate: Unknown. After returning from a first contact mission, Janeway, Neelix and the Doctor must retake Voyager from an infestation of microorganisms that grow to an alarming size.

Stardate: 50693.2. When the doctor tries to improve his personality by incorporating the psychological profiles of famous and historical people, he is overwhelmed by their dark sides and begins exhibiting signs of a split personality, one the regular doctor, and the other dark and evil. Kes asks to leave Voyager when they encounter a race with vast knowledge of the region of space they are currently exploring.

Stardate: 50953.4. B'Elanna Torres discovers a holodeck program where Chakotay and the Maquis rebel against Janeway.

Stardate: 51082.4. Chakotay is stranded on a planet where two races are trying to wipe each other out in a massive, planet-wide war.

Stardate: 51367.2. After making contact with a race of telepaths, the Voyager crew must help defuse a volatile situation when a local citizen acts on a random, violent thought inadvertently tranferred from Torres.

Stardate: 51471.3. 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.