Thanks for the accurate update; I'm always leery when the media tries to report on stories like this as often they get it wrong; at least they didn't show Acela Trains in their stock footage B-roll
Jamaica station is controlled by two interlockings. Jay controls the west end of Jamaica station and Hall the east end. The next CP west of Jay towards New York Penn is Harold by Sunnyside, and the next major CP eastwards towards Hicksville and Babylon is Queens. There is a minor CP called Hollis with a single switch on the mainline controlled by it between Hall and Queens.
Hall controls access to the three eastward routes out of Jamaica, namely Main Line (Mineola, Oyster Bay, Hicksville, Huntington, Port Jefferson, Ronkonkoma, Greenport and Hempstead), Montauk Branch (Babylon, Patchogue, Montauk) and Atlantic Branch (Long Beach, Far Rockaway, West Hempstead), and also access from the west side into Hillside Facility. With Hall out, they had to preset three routes, one for each line, and hence no cross platform transfer was possible at Jamaica for the duration. The train changes had to be moved to Mineola, Hicksville, Huntington, Valley Stream and Babylon, and hence the total chaos.