Star Trek: Prodigy revealed what happened to Chakotay. (Spoilers ahead)
Star Trek: Prodigy has been building a storyline all season about the disappearance of Captain Chakotay of the USS Protostar. Fans may remember Chakotay as a Commander on Star Trek: Voyager. Well, several years after Voyager returned to the Alpha Quadrant, Chakotay was made captain and given the command of an experimental new ship; the Protostar.
The Protostar is a ship that is powered by a, well, protostar, and gives it a whole new ability to travel than conventional warp-travel. Yet, one day the ship goes missing and no one can find the former Voyager commander, the crew, or the Protostar.
It isn’t until the 16th episode, “Preludes” that we get a revelation as to what happened to Chakotay and the Protostar crew.
During the course of the episode, viewers are keyed into what happened to Chakotay and the Prodigy crew. The ship and its crew arrived at some point in the future after passing through a temporal anomaly and arrived on the planet of Solum. Solum is home to the Vau N’Akat, the species of Prodigy’s main villain, The Diviner.
After the ship arrived, the Vau N’Akat sent their Drednoks to invade the ship and capture the crew. Chakotay was able to break free from his prison and sent the Protostar back in time to avoid it being used as a weapon, as Diviner and several other members of his race, wanted to use it to go back in time and destroy the Federation.
Chakotay is lost in the future on a prison planet
Not only is our beloved commander turned captain in the future at some unknown time and date, but no one in the Federation knows this just yet, or how to get him home. It isn’t just the former Protostar captain lost to time at the moment, but is the entirety of his crew as well.
This is setting up some rather interesting possibilities for the season finale, the least of which will be how or even if, the current Protostar crew of wannabe cadets can save Chakotay.