St. Nicholas of Tolentine's 1916 Moller pipe organ (Opus 2138) was rebuilt by Peragallo in 2006 and will be restored over the course of the next several years. The organ at St. Nicholas is one of the busiest in the country, playing at all Masses, at several choir rehearsals per week, and at a host of weddings, funerals, and concerts.
At each of the eleven regularly scheduled Masses, the post-Vatican II Mass is celebrated with music.
John P. O'Neill, an American counter-terrorism expert, working for the FBI, and killed in the September 11 attacks, once served as an altar boy in this church and is buried in the churchyard.