The lower North Island is expected to be hit by heavy rain as a front that drenched parts of Southland makes its way up the country.
Wellington, Kapiti, Wairarapa and Taranaki are in for a drenching on Thursday.
While further north Auckland is expected to once again escape the brunt of the bad weather, with only a few isolated showers.
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MetService meteorologist Ciaran Doolin says the weather begins to "settle down" as it makes its way up the country.
Heavy rain has soaked parts of Otago and Southland since Monday with 300 millimetres of rain being dumped on Milford Sound and 310 millimetres on Secretary Island, Mr Doolin says.
"It was really down to the fact it was static over them, that they saw the most rainfall," he says.
The southerly front had been hovering over Fiordland but is now making its way up the South Island expected to hit Nelson and Marlborough by midnight Wednesday, Mr Doolin says.
Three centimetres of snow is expected to fall near the Lindis Pass Summit and heavy rain could continue to fall in Southland and on the West Coast overnight.
Along with rain, temperatures are expected to plummet to the low-to-mid teens throughout the South Island.
Christchurch will drop from a high of 24degC on Wednesday to 14degC on Thursday and Queenstown will reach a high of 12degC on Thursday.