Starting in 2018 Lisboa was Secretary-General of the Episcopal Conference of Mozambique and Coordinator of the Social Department of the same Conference. He was involved in attempting to mitigate the Insurgency in Cabo Delgado, in which Islamist terrorist groups motivated by oil exploration in the region attack Christians. In 2020 he made an appeal to the European Union and especially to Portugal, to review the terms with which the most industrialized countries approach countries with a fragile but resource-rich economy.