Uncle Tom's Clinic is the story of two women, Faith Brandon and Kara Ellison. Faith, a victim of rape while on spring break in Florida, must make the agonizing life and death choice for the child she is carrying in her womb. As the daughter of Dr. Ryle Brandon, nationally known Christian author and President of Justin College, a small Christian college in the Midwest, Faith is too ashamed to tell anyone of her condition. Moreover, she is certain she will lose her boyfriend, Chris, unless she has an abortion.

Facing an impossible situation, Faith turns to her best friend, Hope Stuart, daughter of Vivian Stuart, the pro-choice Democratic candidate for Congress. Hope, who has taken a summer job at her Uncle Tom's abortion clinic, offers Faith an easy way out of her dilemma. Meanwhile, Kara Ellison, and her husband, Robert, are struggling with infertility. Their fervent prayer is to adopt a child. Will God answer their prayers?