The world body revealed that the Sudanese government has agreed to let United Nations workers vaccinate tens of thousands of children against polio in the violence-wracked South Kordofan and Blue Nile states.
United Nations Humanitarian Coordinator in Sudan Ali al-Zaatari said the vaccination campaign would begin on November 5.
Although Sudan was recently declared polio free, the virus has reappeared in east Africa.
The UN says a million people are affected by the violence.
Two weeks ago, the UN Security Council had urged Khartoum and the rebels to agree to allow vaccinations to go forward in the two troubled states, saying the health and livelihood of 165,000 children aged five and younger was at stake.
According to the UN, these poorly immunized children could get the disease.
"Sudan's future lies in the health of its children," Zaatari said.
"This is an opportunity for all parties to put children's health before politics and to ensure that this campaign goes ahead without delay."
Highly infectious polio is spread by person-to-person contact, exacerbated by poor sanitation and a lack of clean water.
Affecting mainly children aged under five, it can cause total paralysis within hours.