Political newcomer Robert Abela is set to take over from Joseph Muscat following Saturday's vote.
Election results, which was revealed on Sunday, handed the leader of the ruling Labour Party 58 per cent of the votes.
He defeated initial favourite - deputy prime minister and minister of health Chris Fearne.
"I am humbled," Abela told supporters. "I thank my friend Chris (Fearne) and look forward to working together for the good of the party and the country. There is only one winner today, the Labour Party."
Abela, who was elected to the parliament for the first time just over two years ago, has promised to place increased government focus on social issues and affordable housing.
Muscat, who announced his resignation on December 1, has been accused of protecting associates involved in the 2017 murder of journalist Daphne Caruana Galizia.


US war in Iran has cost $29 billion so far, Pentagon says
At Temple of Heaven summit, Trump and Xi will seek a good harvest
Peace deal hopes fade after Trump rejects Iran proposal
Protests erupt after key college entrance test cancelled in India
UK's Starmer defies calls to quit, says he is getting on with governing
New Israeli law sets military tribunal for those linked to October 7 attack
Russia strikes Ukraine with drones as ceasefire ends
Dutch hospital quarantines 12 over breach of hantavirus protocol
