The company is headquartered in the Long Island City neighborhood of the New York City borough of Queens, with its main base at John F. Kennedy International Airport. It also maintains a corporate office in Cottonwood Heights, Utah.

The airline mainly serves destinations in the United States, along with flights to the The Bahamas, Bermuda, Barbados, Colombia, Costa Rica, the Dominican Republic, Grenada, Jamaica, Mexico, Peru, Puerto Rico, Trinidad and Tobago, and many more. As of March 2016 JetBlue serves 97 destinations in the U.S., Mexico, the Caribbean, Central and South America.

As of 2016, the airline is one of two in the United States with a four-star rating from Skytrax, along with competing low-cost airline Virgin America.