Jet Blue comes in on A side. You come off the shuttle on level 3. You would go down to level 2 to baggage claim if you checked luggage. Then down to level 1 and out the doors across from the National counter, cross the street, then take the escalator or elevator to level 2 of the garage to get to National's cars. If you didn't like the selection, you would have to go back down to level 1 of the garage, back across the street, up to level 3, cross the terminal to B side, then back down to level 1, cross the street, on B side National is on ground level of the garage. Unless the selection on A side is really bad, I don't think it's worth running all over the airport. It might be easier if one person waited with the luggage while another checked what was available.
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