The study's co-lead investigator, Associate Professor Nikki Turner from Auckland University, said there wasn't any particular reason for the dramatic jump in numbers this year.
"Last year was a relatively quiet flu year. It's not that we're doing anything differently, but some years you have more community immunity."
Babies (under 1 year old) were hardest hit with the highest influenza hospitalisation rate - almost five times higher than children aged 1-4 years, the second-hardest hit age group, the study found.
Last year, patients aged 5-19 years had the highest rate.
The other group with high illness rates were those living in crowded and draughty housing conditions.
Dr Huang said the influenza vaccine was the main weapon to fight the virus. The predominant strain of flu to hit the population this year was the H1N1 strain, which the vaccine protected against.
Vaccination doses had reached one million since 2009, but even more needed to take up the jab in order for hospital admission figures to decrease, she said.
The vaccine was free for anyone aged over 65, anyone who suffered from specific medical conditions, and pregnant women.
Having the vaccine free for all would be "lovely", but there were factors to consider such as the cost, she said. People in high-risk groups needed to think about vaccination for next year.