I don't believe AA ever started flying SJU-VQS, did they? They announced a December start date, postponed it, postponed it, and have now put it off indefinitely. VQS is awesome though.
BTW, JFK-SJU fares are only about $20 higher than EWR if you can't stand EWR. Maybe not on the days you need to travel, obviously, but I got a great $79 fare than combined with some cheap SAN-JFK fares.