Alaska Airlines JFK Terminal Alaska Airlines JFK Terminal has check-in counters on the lower level of the terminal. You can check in online, at the airport, Baggage claim is located on the lower level of the terminal. You can find your baggage by following the signs for your airline.Security is located on the lower level of the terminal. You will need to go through security before you can go to your gate. https://www.airlineshubs.com/airport/alaska-airlines-jfk-terminal/