The two met briefly on Wednesday and Scorsese presented a book to the head of the Catholic Church while they held a film clapperboard before the cameras, the Holy See said.
Scorsese, a native New Yorker, was raised in an Italian Catholic family.
Pope Francis has met with US director Martin Scorsese in Vatican City. (EPA PHOTO)
In addition to his other duties, the pontiff meets with individuals or groups for private audiences almost every day.
These include not only key people from the Vatican or foreign bishops, but also public figures. In September the pope met actor and Rocky star Sylvester Stallone. As a joke, the actor challenged the pope to a boxing match.
Before the meeting, Scorsese attended the pope's weekly general audience with his daughter Francesca, accompanied by actress Lily Gladstone.
The 37-year-old plays one of the leading roles in the latest Scorsese film Killers Of The Flower Moon and has been nominated for a best actress Oscar.
Leonardo DiCaprio and Robert De Niro are also in the highly acclaimed movie. De Niro is an Oscar nominee in the best supporting actor role and Scorsese as director. The picture is also up for a best picture award at this year's Oscars, which take place in Los Angeles on March 10.