New York is actually surprisingly uninteresting as a military target.
You'd glass it if you were trying to kill US logistical capacity of course, but if you were trying to neuter a second-strike, you wouldn't really bother.
Port Newark is a primary industrial target, and the large cluster of defense contractors in northern NJ are a primary counterforce target. Unfortunately the fallout plumes from the Jersey targets covers all 5 boroughs.
You'd glass it if you were trying to kill US logistical capacity of course, but if you were trying to neuter a second-strike, you wouldn't really bother.