Four evacuations took place on Tuesday and another group of 12 made it out late Wednesday, but a top humanitarian envoy questioned a deal under which medical emergencies are used as bargaining chips.
A total of 29 emergency medical cases are expected to be evacuated under a deal with the government that saw rebels release several men, including workers detained during fierce clashes with the army in March.
The numbers are still a far cry from the nearly 500 patients in the Damascus suburb the UN said weeks ago would die if they did not urgently receive better treatment.
"Most of them suffer from cancer, chronic diseases and heart diseases," she said, adding that the evacuees were transferred to Damascus.
From the list of 500 urgent cases announced in November at least 16 have already died for lack of medical assistance.
Around 400,000 people live in the Eastern Ghouta area on the edge of the Syrian capital.
The enclave is controlled by rebels, the dominant faction among them Jaish al-Islam (Army of Islam), and has been under siege by the government for four years.
The agreement between the rebels and the government was reached with support from Turkey, according to the Syrian Observatory for Human Rights, and led to the release of 14 men held by Jaish al-Islam rebels.
It is "not a good agreement if they exchange sick children for detainees that means children become bargaining chips in some tug of war," Egeland told the BBC.
"That shouldn't happen. They have a right to the evacuation and we have an obligation to evacuate them," he said.
Another nine people have been swapped by the rebels but it was not immediately clear who they are.
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