The shipping industry says it will no longer pay millions in annual charges to the watchdog agency that polices the region’s docks and marine terminals, amid New Jersey’s mounting efforts to permanently shut down the Waterfront Commission of New York Harbor. In a letter on Friday, New York Shipping Association president John Nardi said the regulatory agency that controls all hiring on the waterfront was “without authority to levy assessments.” Employers of longshoremen and other dockworkers currently pay more than $17 million in annual assessments, essentially a tax on the industry which pays …