Cephalhematoma is one of the common birth traumas; 0.4% to 2.5% of newborns are reported have cephalhematoma after birth. Most of these lesions improve spontaneously without any medical intervention. Cephalhematoma occurs by the injury of subperiosteal vessels of the skull. In cases related to genetic coagulation factor deficiency, where there were no recruitment of instruments, such as, forceps or vacuums during delivery, only 2% of newborns were diagnosed with cerebral hemorrhage, which are types of intracranial or subgaleal hemorrhage. Here, we have reported the case of newborn with hemophilia B. This patient was born without any issues during vaginal delivery, and was discharged on the 3rd day after birth. Three days later, on the sixth day after birth, the patient was admitted due to neonatal jaundice, anemia and worsened cephalhematoma.