Between 1968 and 1973, Harris was married to singer and activist Joan Baez. Baez related the story of his arrest to the audience during one of her performances at the Woodstock Festival, recounting that while Harris was being arrested, anti-Vietnam War protesters were pasting a "resist the draft" bumper sticker on the police car. Having grown apart during his imprisonment, he and Baez separated a few months after his release; they filed for divorce a short while later. Harris and Baez had one son together, Gabriel Harris, born in December 1969. Gabriel attended the private Peninsula School in Menlo Park, which his mother had also attended. Gabriel is a drummer who sometimes tours with his mother.