Police didn't say what they were looking for. Agents from the SBI took part in the search.
Officers also searched a wooded area near the home March 22.
ABC11 sources say Higganbothan's mother, Vania Sisk, has given authorities conflicting stories about her son's whereabouts. Another woman who lived in the Pear Tree Lane home - 28-year-old Antoinetta McKoy - is also missing.
McKoy's relatives reported her missing in February, but no one's seen her since December.
McKoy and Higgenbothan reportedly lived in the home with several other women and children, who were members of a so-called cult called the "Black Hebrew Israelites," before the group suddenly moved to Colorado.
Search warrants indicate that investigators believe the boy was killed possibly by a man named Pete Moses Jr., who police believe is the leader of the group. Police have not commented and Moses does not face any charges related to Higganbothan or McKoy.
Police maintain their investigation is a missing persons case.