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- Ebenezer United Church Church
- St. Agnes Kouying Tsao Catholic Church Catholic (Latin rite) · Church · 2130 Rodick Road
- St. Vladimir's, formerly St. Luke's Church Church
- The Chinese Martyrs Catholic Church Catholic (Latin rite) · Church · 2755 Denison Street
- Apple Creek Seventh Day Adventist Church Adventist · Church
- Markham Peoples Community Church Church · 22 Esna Park Drive Today 11:30
- Zion Alliance Church Church · 2830 Highway 7 Today 08:15
- All Saints Anglican Church Anglican · Church
- Calvary Korean Presbyterian Church Church · 7011 McCowan Road
- Central United Church Church
- Destiny & Dominion House of prayer
- Empowered Life Church House of prayer
- Fellowship Baptist Church Baptist · Church · Kennedy Road
- Full Gospel Assembly of God Nondenominational · Church · 2 Legacy Drive
- Grace Church House of prayer
- Grace Life Centre House of prayer · 801 Progress Avenue
- Hope Bible Church House of prayer · 8176 McCowan Road
- Iglesia Ni Cristo Church
- Jesus the King Greek Melkite Catholic Church Catholic (Latin rite) · Church · 1 Lyndhurst Drive
- Kingdom Hall of Jehovah's Witnesses Other restorationist · Church · 8205 McCowan Road
- Logos Baptist Church Baptist · Church · 133 Old Kennedy Road
- Malvern Baptist Church Baptist · House of prayer
- Markham Baptist Church Church
- Markham Chinese Alliance Church Church · 1 Chatelaine Drive
- Markham Chinese Presbyterian Church Reformed and Presbyterian · Church · 2250 Denison Street
- Milliken Gospel Church Church · 8 Elson Street
- Milliken Wesleyan Methodist Church Methodist and Holiness · Church
- Netherlands Reformed Congregation Church
- Olive Branch Community Church Reformed and Presbyterian · House of prayer
- Peach's United Church Church · 10762 McCowan Road
- Rhenish Church of Canada Lutheran · House of prayer · 2667 Bur Oak Avenue
- Rouge Valley Mennonite Church Anabaptist · Church
- Saint Barsaumo Syriac Orthodox Church Church
- St. Andrew's Presbyterian Church Reformed and Presbyterian · Church
- St. Andrew's United Church House of prayer · 32 Main Street North
- St. Dimtrija Solunski Macedonian Orthodox Church House of prayer
- St. Luke's Catholic Church Catholic (Latin rite) · Church · 39 Green Lane
- St. Mark Coptic Orthodox Church Oriental Orthodox · House of prayer · 455 Ferrier Street
- St. Mary and St. Samuel the Confessor Coptic Orthodox Church Oriental Orthodox · Church · 9393 McCowan Road
- St. Maurice & St. Verena Coptic Orthodox Church Orthodox (Byzantine) · Church · 3300 Highway 7 East
- St. Nicholas Greek Orthodox Church Orthodox (Byzantine) · Church · 3840 Finch Avenue East
- St. Panteleimon Greek Orthodox Church of Markham Orthodox (Byzantine) · House of prayer · 11323 Warden Avenue
- St. Philip's on-the-hill Anglican Church Anglican · Church
- St. Thomas the Apostle Catholic Church Church
- The Bridge House of prayer · 5440 16th Avenue
- The Church of St. Patrick Catholic (Latin rite) · House of prayer · 5633 Highway 7
- The Village Church House of prayer
- Toronto Christian Community Church Evangelical and independent · Church · 100 Acadia Avenue
- Toronto Long Liang Church Church
- Truth Tabernacle Church
- Unionville Gospel Hall Church · 24 Second Street South
- Unionville Presbyterian Church Reformed and Presbyterian · Church
- Victoria Square United Church Church · 10720 Victoria Square Boulevard
- Wideman Mennonite Church Anabaptist · Church
- Wismer Baptist Church Baptist · Church
- Yumkwang Korean Presbyterian Church House of prayer