The pair were withdrawn from their second event, JGP Poland, due to a medical problem and were reassigned to the final Junior Grand Prix stage of the season, JGP Italy. In Egna, they again won gold and qualified for 2019–20 ISU Junior Grand Prix Final where they finished fourth. Khudaiberdieva/Filatov did not compete again until February 2020 at the 2020 Russian Junior Nationals where they finished just off the podium in fourth, thus narrowly missing being named to the team for the 2020 World Junior Figure Skating Championships.