Most information about Taiwan before the arrival of the Dutch East India Company in 1624 comes from archaeological finds throughout the island. The earliest evidence of human habitation dates back 20,000 to 30,000 years, when lower sea levels exposed the Taiwan Strait as a land bridge. Around 5,000 years ago, farmers from the southeast Chinese coast settled on the island. These people are believed to have been speakers of Austronesian languages, which dispersed from Taiwan across the islands of the Pacific and Indian Oceans. The current Taiwanese aborigines are believed to be their descendants.

Penghu 1 is a fossil jaw (mandible) belonging to an extinct hominin species of the genus Homo from Taiwan which lived in the middle-late Pleistocene. The precise classification of the mandible is disputed, some arguing that it represents a new species, Homo tsaichangensis, whereas others believe it to be the fossil of a H. erectus, an archaic H. sapiens or possibly a Denisovan.