Posted June 4th, 2017, 01:09 PM
OP, how much luggage & are you comfortable using mass/public transit to get to/from your hotel, on the East side of Manhattan ? Hotel to MCT would be an easy taxi, car service or Uber ride on a Saturday morning, traffic is generally light - about $15 with tips (or less)
It looks like you are either sailing NCL or CCL for 7 nights - on your return, the piers would be a little more busy with an extra Disney ship, just F.Y.I. and should not be a major issue - pack patience & allow a little extra time for disembarkation as CBP can sometimes be not adequately staffed ... will be then be going back to your parked vehicle & drive home ?
One option as suggested is to park outside NYC at one of the off-airport lot near/at EWR (daily rates is $10 to $15 on average, some have AAA and/or AARP discounts) and then you can do AirTrain to NJT to NY's Penn Station @ W. 33rd. Street, plus a short cross-town taxi ride or Uber ride to the hotel.
Another possibility is to park closer, across the Hudson River at the NY Waterway 5 story indoor/outdoor secured lot @ Port Imperial/Weehawken, NJ - take the ferry across with luggage, and, possibly use their free bus/shuttle route to get to/near your hotel
As for our "metro" system - it's run mainly by the MTA and fares are paid using the Metrocard @$2.75 per trip p/p - 1 free transfer between bus & subway within a time limit. Regional commuter train lines including LIRR and NJT are not related to Amtrak, each system have their own fare tables, off-peak & senior discounts, etc.
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