Except for the passenger ship terminal above 42nd street, commercial ship operations in Manhattan have pretty much come to an end.
One of the last commercial shipping terminals to be built on Manhattan was Marine and Aviation Pier 40. It was built in 1962 at a cost of $18 million expressly for the use of Holland America Line, which for the previous 73 years had docked at Hoboken. For its time, it was ultra modern and designed to handle passengers and cargo.
Holland America Line signed a 20 year lease at $1.2 million per year, but by 1966 the passenger trade was rapidly declining and cargo trade was containerizing which made Manhattan a terribly unsuitable location. In 1966 Holland America Line merged its cargo business into ACL and they moved to Port Newark in New Jersey, and around the same time the passenger ships moved to the passenger ship terminal.
Whenever my father passed the terminal he would tell me that this move was the worst real estate deal ever made by Dutchmen. Which means that Manhattan is both the location of the best Dutch real estate deal and the worst Dutch real estate deal ever.