The Great West Window depicts the Ascension of Our Lord into Heaven. It was installed in 1867 as a memorial to Father Geoghegan, Melbourne’s first priest. Best seen in the late afternoon, the window depicts:

• Our Lady and eleven apostles (lower register), with Bishop Geoghegan as St John the Evangelist to the right of Our Lady
• Our Lord ascending into Heaven (central panel, middle register)
• Angels carrying scrolls with Latin texts from the Acts of the Apostles ‘Men of Galilee, why do you stand looking up to heaven’ and ‘This Jesus who is taken up from you into Heaven’ (panels on either side)
• Old Testament prophets, priests, patriarchs, kings and holy men and women (roundels)
• The Book of the Apocalypse (top register)
• The Blessed Trinity (window above)

These two windows were made by a different studio than the rest of the Cathedral's windows and there is a notable difference in colouring. The windows depict:

• The Sacrifice of Melchisedech
• The Last Supper.

The three windows depict:

• The Resurrection
• The Crucifixion
• The Ascension.

The three windows depict:

• The Holy Family at work
• The Finding of the Child Jesus in the Temple
• The Flight into Egypt

The Ladye Chapel     The five windows depict: The Annunciation The Visitation The Nativity The Adoration of the Magi The Presentation of Our Lord in the Temple. Above these are depictions of Our Lady as the Immaculate Conception, the Magnificat, the Madonna, her Assumption into Heaven and Her Coronation as Queen of Heaven. At the top of the windows are angels bearing shields representing some of the titles of Our Lady. Old Testament women are depicted in the lower part of the window:  Eve and Ruth, Miriam and Deborah, Judith and Esther, the Queen of Sheba and Ruth, the daughter of Jephtha and the Mother of the Machabees.

The three windows depict:

• St Brigid preaching (central)
• St Patrick receiving his mission from Pope Celestine (left)
• St Patrick landing in Ireland (right).

The three windows depict:

• St Thomas preaching on the Blessed Sacrament (central)
• St Thomas surrounded by angels (left)
• St Thomas raised in ecstasy (right).

The quatrefoils of these windows depict the three theological virtues: faith, hope and charity.

The two windows depict:

• The Crucifixion with a small picture of the Last Supper, with images of St Gertrude and St Mechtilde on either side
• The Apparition of Our Lord to St Margaret Mary at Paray-le-Monial; below is the Apparition of Our Lord to St Peter after the Resurrection.

On either side are pictures of Fr Claude de la Colombiere, the spiritual director of St Margaret Mary, and Pope Pius IX who extended the Feast of the Sacred Heart to the universal Church.

Five of the eleven sanctuary windows are filled with stained glass. The windows depict:

• St Patrick and St Brigid
• St Francis of Assisi and St Francis Xavier
• Christ’s charge to Peter (central window)
• St Columba and St Columbanus
• St Finian and St Malachy.

The two small windows in the corridor of the sacristies are also made by a different studio and depict St Patrick and St Brigid.