So far, more than 72,600 have been vaccinated, the Hamas-controlled health department announced on Sunday evening.
The hope of the UN and Gaza's health authorities is to succeed in stopping an outbreak of the virus, which a 10-month-old baby was diagnosed with in August, and which was previously found in sewage water.
The vaccination is expected to continue in central Gaza until Wednesday and then begin in the northern and southern parts of the area.
The campaign started with a smaller number of vaccinations on Saturday. The goal is to vaccinate around 640,000 children against polio.
There are many drones flying over central Gaza, and we hope that the vaccination campaign for children will go smoothly, says Yasser Shaabane, head of al-Awda hospital.
On Thursday, Israel and Hamas agreed on a three-day humanitarian pause in Gaza starting on September 1 to allow for polio vaccinations.
Still, the vaccination campaign faces many challenges. Due to the war, around 90 percent of Gaza's population is on the run, many roads are completely destroyed, and several hospitals have been forced to close.
We fled from death with our children and have moved from place to place for our children's sake, says Wafaa Obaid, who has taken her three children to a hospital in Deir al-Balah to get them vaccinated.