Carrying a cross, people stood at a distance as Vanisa Anifa's small coffin was lowered into the ground by masked and gloved health workers, and a Catholic priest prayed over her body.
"It's a feeling of sadness because we have lost one of our own, a daughter of the church," Father Innocent Ndogo said on Friday.
"As we have always said, the Lord gives, and the Lord takes away."
Ituri, the region at the centre of the current outbreak, has reported more than 90 per cent of the cases.
The response has been complicated by residents clashing with healthcare professionals over disrupted burials and the response to the outbreak, which has been militarised at times.
The impersonal nature of safe burial practices and the severity of the epidemic were evident on Friday as only healthcare workers in protective gear were allowed to handle the coffin and the burial.
Bundibugyo, the type of Ebola in this outbreak, has no approved treatment or vaccine, and even some health workers have said they did not have the masks, gloves and other gear to protect themselves.
During a visit to Bunia on Friday, Congolese Health Minister Roger Kamba said there were 933 confirmed cases and 245 deaths from the current outbreak.
Kamba also stated that all health centres will be free in Ituri and that healthcare workers bonuses will be doubled.
There are 35,000 suspected potential contacts, Africa's Centres for Disease Control and Prevention said on Thursday.
Despite the rapid spread of the outbreak, it is still not nearly as deadly as a 2014 outbreak of Ebola that killed more than 11,000.
With no approved vaccines or treatments, the Bundibugyo strain was not tested for in the early days.
This lack of testing is one of the reasons the outbreak has spread to such an extent.
The more common Zaire virus, for which there is a vaccine, was responsible for most of Congo's past 16 outbreaks of the disease.
Alex Lock, a communications officer at the International Federation of Red Cross and Red Crescent Societies, asked people to resist feeling indifferent.
"She was a baby. She had her whole life ahead of her. Unfortunately, she was taken by the disease, a disease that, as you know, is transmitted from one person to another," Lock said.
Although the outbreak is concentrated in Ituri, cases have also been recorded in the North Kivu and South Kivu provinces and have spread across the border to Uganda, where 19 confirmed cases have been reported and two people have died.
