Saint John partners with the parish communities of students to provide for the sacramental needs of the students. Priests from the local parishes celebrate Mass weekly for students of different grade levels. Monthly the school gathers for Mass.

Students have the opportunity to celebrate the Sacrament of Reconciliation during Advent and Lent.

Although preparation for the first reception of Reconciliation and Eucharist and for the Sacrament of Confirmation takes place at the parish level, there is classroom preparation in religion classes as well.