No.. the Jetblue hangar wasn`t touched - it also wasn't in the first update tbf, so I really don't know why it keeps disappearing for you 😕
Just to make sure, you do have the file "jfk-scene-jetblue.bgl" in your "Community\inibuilds-airport-kjfk-newyork\Scenery\airport-kjfk-newyork\kjfk-scene" folder, correct?