NJ Transit commuters faced delays of up to 30 minutes Wednesday morning.
An Amtrak power outage stalled their own trains and New Jersey Transit lines, officials said.
Noisy construction has turned the neighborhood into a "war zone," residents said.
Service on the passenger railway was suspended both ways.
A train stalled in the East River tunnel about 7:30 Wednesday night, stranding communters, Amtrak says.
More than a foot of snow fell on parts of the city, the National Weather Service said.
Up to four blasts daily will help bore a tunnel between Penn Station and Newark.
New Yorkers were urged to wear layers and notify authorities of anyone they think needs help.
Service changes will also affect Empire Service between New York City and Albany.
Antonio Meloni of New York Anti-Crime Agency called the unlit span the "unwanted stepchild" of bridges.
Passengers had to get on a later train headed to the city, an Amtrak spokesman said.
A storm will bring strong rain and winds starting Tuesday evening, the National Weather Service warns.
Taco Bell, Nathan's, Pizza Hut, Tim Horton's and Colombo Yogurt were cited for having live roaches.
A man struck and killed on the tracks in South Jersey causes delays to and from Philadelphia.
The Northeast Corridor has had delays since Wednesday after an electrical problem.
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