In 2014, more human fossil remains were discovered at Afontova Gora II during salvage excavation before the construction of a new bridge over the Yenesei River. The remains belonged to two different females: the atlas of an adult female and the mandible and five lower teeth of a teenage girl (Afontova Gora 3) estimated to be around 14–15 years old. Initially, the new findings were presumed to be roughly contemporaneous with Afontova Gora 2. In 2017, direct AMS dating revealed that Afontova Gora 3 is dated to around 16,090 cal BC).

The mandible of Afontova Gora 3 was described as being gracile.

Researchers analyzing the dental morphology of Afontova Gora 3 concluded that the teeth showed distinct characteristics with most similarities to another fossil (the Listvenka child) from the Altai-Sayan region and were neither western nor eastern.  Afontova Gora 3 and Listvenka showed distinct dental characteristics that were also different from other Siberian fossils, including those from Mal'ta.

DNA was extracted from one of the teeth of Afontova Gora 3 and analyzed. Compared to Afontova Gora 2, researchers were able to obtain higher coverage genomes from Afontova Gora 3. DNA analysis confirmed that the individual was female. mtDNA analysis revealed that Afontova Gora 3 belonged to the mitochondrial Haplogroup R1b. Around 2.9-3.7% of the genome was Neanderthal in origin.

In a 2016 study, researchers determined that Afontova Gora 2, Afontova Gora 3, and Mal'ta 1 (Mal'ta boy) shared common descent and were clustered together in a Mal'ta cluster. Genetically, Afontova Gora 3 is not closer to Afontova Gora 2 when compared to Mal'ta 1. When compared to Mal'ta 1, the Afontova Gora 3 lineage apparently contributed more to modern humans and is genetically closer to Native Americans.