The global economy development has not only positive effects but also negative consequences, in terms of air pollution with a major impact against the climate change and human health. This fact stimulated the intensification of research endeavours to identify and develop new options for sustainable energy supply and further for reducing the dependence on fossil fuels, as considered the major air pollutants globally. Among the non-polluting fuels, the currently biodiesel second generation becomes a viable solution in order to develop an alternative sustainable source of fueling. Even if this type of fuel has been implemented and approved as viable for land and air transportation meanings, the maritime transportation sector is still reluctant in implementing this new fuel on board to commercial vessels. In this article were approached the major advantages of using biodiesel powered engines, being detailed the technical, operational and legal solutions to eliminate the current reserve in adopting this innovative cleaner fuel on maritime transportation practice.