Hundreds of children disappeared without a trace during the Salvadoran civil war. Many were survivors of massacres carried out by the U.S.-trained Salvadoran army. Taken away from the massacre sites by soldiers, some grew up in orphanages or were "sold" into adoption abroad, not knowing their true history or identity. The film follows Margarita Zamora, an investigator with human rights organization Pro-Búsqueda as she traverses the Salvadoran countryside probing memory, swabbing DNA samples, and searching for disappeared children - including her own four siblings.

In the United States, Jamie Harvey, adopted from El Salvador in 1980, dreams of locating her birth family; but with no information, no contacts and no access to the Salvadoran military war archives, she is losing hope. CHILDREN OF MEMORY weaves together separate yet intertwined journeys in the search for family, identity and justice in El Salvador.