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Pikmin Extinction occurs when every single Pikmin, including those planted in the ground and stored in the Onions, is lost. The day ends immediately afterward, due to the fact that without Pikmin, the player cannot perform any useful activity, and the Onions each produce a single seed at the beginning of the following day.
In Pikmin, the following is Olimar's Journal entry on the first day extinction occurs:
- "The Pikmin have all perished because of my own carelessness. I am an utter disgrace as a leader... How can I continue to collect parts without them? Still the Onions join me in low orbit, as if this Pikmin extinction had never happened. I shan't sleep tonight..."
In Pikmin 2, Extinction will occur when all Pikmin are lost in a cave, and Olimar and Louie are forced to leave the cave, most likely due to lack of protection of the Pikmin and inability to claim treasure.
In Pikmin 3, Pikmin Extinction can only occur in Mission Mode and Bingo Battle. If all of one species of Pikmin die in Story Mode, the Onion will expel 1 Seed of the once-extinct Pikmin species.