The airports are Capital City Airport in Harrisburg, Arnold Palmer Regional Airport in Latrobe and Lancaster Airport in Lancaster.
The closures will not force the shutdown those airports, but pilots will be left to coordinate takeoffs and landings among themselves over a shared radio frequency.
The FAA is being forced to trim $637 million for the rest of the fiscal year that ends Sept. 30. The changes are part of the across-the-board spending cuts known as sequestration, which went into effect March 1.
The FAA's final list released Friday includes 149 air traffic control facilities that it will close nationwide starting early next month.