The heavy downpours wreaked havoc across the city with footage showing commuters overwhelmed by floodwaters in various subway stations.

A flash flood warning was in effect in New York City until 9:45 p.m., and New Jersey Gov. Phil Murphy declared a state of emergency. Middlesex, Morris and Somerset counties remained under a flood warning until 7:15 a.m. Tuesday.

Transit agencies in the New York City area were promising a fairly smooth commute with some lingering delays on Tuesday, the morning after heavy rain pummeled the region, flooding parts of the subway system, inundating major roads and causing long flight delays.

Parts of New York City and Northern New Jersey were inundated on Monday night as widespread thunderstorms moved through.

According to the National Weather Service, flooding in the Binghamton area is possible on July 14 due to thunderstorms causing excess rainfall.

A New York county clerk has again refused to file a more than $100,000 civil judgment from Texas against a doctor accused of prescribing abortion pills.

An updated flood watch was released by the National Weather Service on Sunday at 10:25 a.m. valid from 11 a.m. until Monday 5 a.m. for Oneida, Seneca, Cayuga, Onondaga, Tompkins and Madison counties.

FOX Weather Meteorologist Ari Sarsalari explains what led to another Flash Flood Emergency in New Mexico. Heavy rainfall over a burn scar near Silver City, New Mexico that prompted the National Weather Service to issue a Flash Flood Emergency for the eastern part of Grant County.