Thunderstorms were likely, with a high risk in northern Westland, Buller, Nelson and the Marlborough Sounds.
"Today's trough will spread the area of rain and thunder, currently across northern areas of the South Island, to many western parts of the North Island during the late afternoon [and] evening especially from Taranaki down to the Wellington region,'' MetService meteorologist Daniel Corbett said.
"This will just be a few showers by the time it reaches the eastern and northern areas later tonight.''
MetService's rain radar for Friday looks grim for much of the country.
Buller could expect the heaviest rain today with an expected 50mm to 70mm.
Auckland would see showers and "a rumble or two'' of thunder, but most of the more severe weather would be further south, he said.
A second front approaching the South Island on Thursday would be accompanied by gale-force northwesterlies and heavy rain - especially in Fiordland, Westland, Otago and Canterbury Headwaters.
Things wouldn't calm down until next week, Mr Corbett said.