Background: Facial anthropometric data are scarce in African children. However, such data may be useful for the design of medical devices for high disease burden settings. The aim of this study was to obtain 3D facial anthropometric data of Congolese children aged 0-5 years. Methods & Findings: The faces of 287 Congolese children were successfully scanned using a portable structured-light based 3D video camera, suitable for field work in low-income settings. The images were analyzed using facial analysis algorithms. Normal growth curves were generated for the following facial dimensions: distance between nares and distance from subnasion to upper lip. At birth, 1 year, and 5 years of age the median dimensions were: 13·92, 14·66, and 17.60 mm, respectively for distance between nares, and 10·16, 10.88, and 13·79 mm, respectively for distance from subnasion to upper lip. Modeled facial contours conveniently clustered into three average sizes which could be used as templates for the design of medical instruments. Interpretation: Capturing of 3D images of infants and young children in LMICs is feasible using portable cameras and computerized analysis. This method and these specific data on Congolese pediatric facial dimensions may assist in the design of appropriately sized medical devices (thermometers, face masks, pulse oximeters, etc.) for this population. Clinical Trial Number: The study was registered at ClinicalTrials.gov (NCT03265756). Funding Statement: Association for Health Innovation in Africa (AFHIA, KMC). Declaration of Interests: The authors declare no competing interests. Ethics Approval Statement: After obtaining the appropriate Institutional Review Board approval (The Comite d’Ethique du Nord Kivu, and the Research Ethics Board of the University of Alberta) and parental informed consent, we obtained 3D scans from infants and young children.