Deputy director of Public Health Dr Fran McGrath said the screening policy, which began yesterday, was in line with similar targeted measures imposed in Australia.
But since there were no direct flights from Africa to New Zealand - unlike to Australia - the screening was an additional precaution.
She expected that "in the very unlikely event" that Ebola turned up in New Zealand, it would be an isolated case.
The virus, which the World Health Organisation reported on Friday had killed 961 during its latest outbreak, could not be caught just from sitting next to someone on a plane but instead required contact with infected bodily fluids.
The United Nations agency has declared the outbreak an international health emergency.
Dr McGrath said isolation facilities and existing infection-control protocols in New Zealand hospitals were adequate for treating Ebola.
But, given the serious nature of the disease, samples would be sent for testing to a high-security reference laboratory overseas.
The Ministry of Health is advising New Zealanders to consider carefully any need to travel to the three countries hit by the latest - and deadliest - outbreak.
Any traveller from those countries feeling unwell after returning home is urged to call Healthline on 0800611116 or to phone ahead before visiting a GP or hospital.
- additional reporting Associated Press