Prince Charles, whose family has long-standing ties with the Mediterranean island, has contributed to a £2.6 million fundraising campaign trying to save St Paul's Anglican Pro-Cathedral in the capital, Valletta.
Head of the committee behind the appeal, Martin Scicluna was quoted by the Sunday Telegraph as welcoming the undisclosed amount.
He said: "We were absolutely delighted to receive the donation, because it reinforces the connections this church has had with the Royal Family ever since his parents were here in the 1950s."
St Paul's has severe problems affecting its stonework, tower and spire. It was founded in 1839 by Queen Adelaide, the widow of King William IV and was the first Anglican place of worship on the island.
Prince Charles lived in Malta as a baby. His parents, The Queen and the Duke of Edinburgh, spent spells of time there between 1949 and 1951. They royal couple also honeymooned in Malta, after they got married in 1947.
The Prince of Wales first visited Malta as an adult in 1968 while he was an undergraduate at the University of Cambridge.