Trade security is an important component of Customs work. Customs administration should adapt to the environment they operate and the commencement of the AfCFTA is a new development which calls for adaptation. The AfCFTA presents challenges to trade security due to the large volumes of cargo whose movement should be as unhindered as possible. Various international instruments seek to promote trade security through promoting collaboration, capacity building for Customs administrators, as well as simplification and harmonization of procedures. Interestingly, all trade instruments discussed have demonstrated that trade facilitation and trade security are intrinsically inter-linked. Even though Customs administrations in the AfCFTA have embraced digital technologies they continue to have implementation challenges.