For those residents not quite ready to return to their diocese or religious community after completing the residential program, Saint Luke Institute offers a Halfway House Program. This program lasts from three to six months. Its goal is to consolidate the healing process begun in the residential program and to facilitate return to a viable ministry. In some cases it will also prepare the individual for a transition to a career that excludes sacramental ministry and/or religious life.

The Halfway House Program was founded in 1992 in response to a specific need identified by the Clinical Services Department. This need was to provide a structured setting for those men who were being excluded from ministry. This program was designed to help these men establish a living and working situation apart from the Church structures which had supported them for years.

As additional needs surfaced the Halfway House Program expanded. The Life Transition Program includes a structured Work Search program, weekly Theological Reflection sessions and a bi-weekly psychotherapy group which emphasizes behaviors. The Chronic Relapsers Program is for those who find themselves relapsing following treatment. Their program excludes the Work Search section and instead provides an opportunity for education and/or volunteer or remunerated work. The Therapy Extension Stream is for those residents who it was felt would benefit from structured treatment after the approved Length of Stay (LOS) was exhausted.

The Halfway House Program provides for the needs of residents in other unique situations: the man whose superior needs a secure environment while personnel, legal, ecclesiastical or family issues are worked out; someone leaving a penal institution who needs adjustment time before beginning the next phase of life; and someone who is frightened by the task of job search and needs the structure while up-grading skills.