Catalyst Church started in 2013 under the leadership of Pastor Manny Sanchez as a church plant of Shadow Mountain Community Church. On September 29, 2013, the church began meeting weekly at the Moniker Warehouse in downtown San Diego. In 2016, the church moved to the Sherman Heights area of San Diego, meeting weekly at Sherman Elementary School. In 2020, Catalyst Church moved to the Paradise Hills area of San Diego and merged with Paradise Hills Southern Baptist Church to form one church called Catalyst Church San Diego. In March 2022, Pastor Manny Sanchez left to lead another ministry. That month the church selected Pastor Jason Soto as the new Lead Pastor.