It made its second landfall outside Biloxi, Mississippi, at 12:30am (05:30 GMT) on Sunday as a hurricane with maximum winds of 140km/h.
It is the first time a hurricane has made landfall in MS since Katrina caused widespread flooding and loss of life in 2005.
The worst of the weather will come to areas on the EAST side of the storm (east of I-65). Flooding of up to 11 feet is expected in some areas.
As of 9:30 a.m., 33,344 customers in MS were still without power, according to power companies across the state.
Hurricane Nate's northern eyewall is moving onshore the MS coast.
The hurricane weakened quickly after it made landfall, although winds capable of downing trees were expected to accompany heavy rain as it passes through the Southeast.
New Orleans officials said inside the levee system, the main concern will be high winds and power outages.
Officials ordered the evacuation of part of coastal St. Bernard Parish east of New Orleans ahead of the storm.
Governor Phil Bryant (R) declared a MS state of emergency and signed an Executive Order authorizing the use of the National Guard on Friday.
The rain may cause minor flooding in urban areas with poor drainage, Stark added, but "nothing major". Nate then had maximum winds of 85 miles per hour.
States of emergency were declared in Alabama, Louisiana and MS, although few areas had mandatory evacuations.
Speaking to the MDJ on Saturday, Belanger said the models called for 2.5 to 3.5 inches of rainfall and peak wind speeds of 25 to 35 miles per hour.
Still, the mayor recommended that people take shelter due to the strong winds.
"We're starting to see those rip currents increase and the surf conditions worsen", said Henderson.
Storm Team 9 continues to track Nate and the impact it could have on the Chattahoochee Valley.