This paper assesses the sustainability concerns of bioenergy systems against the prevailing and potential long term conditions in Sub-Saharan Africa with a special attention on agricultural and forestry waste, and cultivated bioenergy sources. Existing knowledge and processes about bioenergy systems are brought into a "sustainability framework" to support debate and decisions about the implementation of bioenergy systems in the region. Bioenergy systems have been recommended based oil the potential to (i) meet domestic energy demand and reduce fuel importation (ii) diversify rural economics and create employment (iii) reduce poverty, and (iv) provide net energy gains and positive environmental impacts. However, biofuels will compete with food crops for land, tabour, capital and entrepreneurial skills. Moreover the environmental benefits of some feedstocks are questionable. These challenges are, however, surmountable. It is concluded that biomass energy production could be an effective way to achieve sustainable development for bioenergy pathways that (i) are less land intensive, (ii) have positive net energy gains and environmental benefits, and (iii) provide local socio-economic benefits. Feasibility evaluations which put these issues into perspective are vital for sustainable application of agricultural and forest based bioenergy systems in Sub-Saharan Africa. Such evaluations should consider the long run potential of biofuels accounting for demographic, economic and technological changes and the related implications.