McGlynn died at the age of eighty-four on May 18, 1951, at his daughter's residence in Newburgh, New York. He was survived by four daughters—Grace, Helen, Virginia, and Mary Rose—and by a son, Reverend Thomas McGlynn. His wife, Rose (née Sheridan), and son, Frank Jr. (also an actor), preceded him in death. He is interred in Glendale's Forest Lawn Memorial Park Cemetery.