When the parish of Sannat was created on April 28, 1688 by Bishop Davide Cocco Palmieri, the chapel of St Margaret was chosen as the new parish church of Sannat and neighbouring Munxar.

Prior to this, the localities of Sannat and Munxar were part of the parish of St George in Rabat.

The church building is listed on the National Inventory of the Cultural Property of the Maltese Islands.

[2] The titular painting depicting St Margaret of Antioch was done by local artist Stefano Erardi.

The feast in honour of St Margaret is celebrated every year on the 4th Sunday of July.