Dave Siegel took the chief executive officer role in January 2012. Siegel's tenure ran through May 2015, when he left for personal reasons and was succeeded by the company's chairman, Bill Franke, who would manage strategy and finances. In April 2014, Barry L. Biffle was appointed as the company's president, reporting to Siegel; after Siegel's departure, Biffle was charged with managing the company's day-to-day operations.
As of April 2019, jetBlue Airways flies to 102 destinations in North, Central, and South America; including destinations in Aruba, The Bahamas, Barbados, Bermuda, Cayman Islands, Colombia, Costa Rica, Cuba, the Dominican Republic, Ecuador, Grenada, Haiti, Jamaica, Mexico, Peru, Puerto Rico, Saint Maarten, Saint Lucia, Trinidad and Tobago, Turks and Caicos Islands, and the United States.
After making a codeshare agreement with Lufthansa that went into effect in 2010, jetBlue transitioned to the Sabre reservation system used by Lufthansa, enabling the airlines to sell tickets on each other's flights, transfer luggage and passengers between the two carriers, and combine frequent flyer programs,. By making use of JetBlue's North America routes as a feeder network, the agreement put Lufthansa in a position to operate quasi-hubs in New York–JFK and Boston Logan.
In late 2009 Republic began to consolidate administrative positions and moved 140 jobs from the Frontier Airlines Denver headquarters to Indianapolis, Indiana. Shortly after that, in January 2010, Republic Airways announced that it would move all of its executives to Indianapolis. In February the Denver Business Journal stated that the headquarters would be moved "soon". Despite this, according to the Denver Business Journal, Frontier Airlines will still maintain a local headquarters in Denver to house Training, Marketing, Customer Reservations, and Scheduling & Planning teams after extending its lease on the building through 2020.
On March 22, 2010, jetBlue announced it would remain in the New York City area, in Long Island City, because of the airline's historical links to the city, the cost of staff relocations, the airline's desire to retain access to financial markets, and because Aer Lingus and Lufthansa, jetBlue's marketing partners, fly into JFK Airport. jetBlue planned to combine its Forest Hills and Darien, Connecticut offices, together about 1,000 employees, into about 200,000 square feet (19,000 m2) in the Brewster Building by mid-2012.
In 2007, jetBlue was also facing reliability problems with its Embraer 190 fleet. For a couple of months, jetBlue contracted ExpressJet to operate four Embraer 145 regional jets on behalf of jetBlue. While this was going on two E-190 aircraft at a time were sent to an Embraer maintenance facility in Nashville, Tennessee. ExpressJet operated routes between Boston Logan and Buffalo, New York and Washington Dulles, and between New York–JFK and Columbus, Ohio (has terminated) and Richmond, Virginia.
In February 2002, the airline launched its first regional product, Frontier JetExpress, initially operated by Mesa Airlines using CRJ-200 regional jets. Similar to "express" operations of other carriers, Frontier JetExpress was targeted for markets to and from Denver that do not generate traffic sufficient to support Frontier's smallest mainline jet, the Airbus A318, but could still offer lucrative business with a smaller jet.
In September 2009, JetBlue made changes to its TrueBlue program. In the new program, members receive three points for every dollar spent toward a flight, excluding taxes and fees, plus an additional three points for every dollar spent on a flight if booked online directly on the JetBlue.com website. Additional points are awarded if the member uses the Barclay's issued JetBlue Mastercard credit card to purchase the flight. The price of flights in points depend on the fare of the flight in U.S. dollars. The new program launched on November 9, 2009.