From 1990 until February 1998 Dr. Pipa, his wife, Carolyn, his daughter, Sara, and son, Joseph III lived in Escondido, CA. Dr. Pipa was the Director of Advanced Studies and Associate Professor of Practical Theology at WTS in CA. There he directed the Doctor of Ministry program and also taught systematic, historical, and practical theology on the Master’s level. He was also the pastor of Trinity Presbyterian Church in America in Escondido, CA.

As of January 1, 1998, Dr. Pipa became the first President of Greenville Presbyterian Theological Seminary in Greenville, SC, where he and his wife now live.