The environmental context causes the use of renewable energy to increase, with the aim of finding alternatives to fossil-based products such as fuels. Biodiesel, an alternative to diesel, is now a well-developed solution, and its production from renewable resources makes it perfectly suitable in the environmental context. In addition, it is biodegradable, non-toxic and has low greenhouse gas emissions: reduced about 85% compared to diesel. However, the feedstock used to produce biodiesel competes with agriculture and the application of chemical reactions is not advantageous with a “green” process. Therefore, this review focuses only on bioprocesses currently taking an important place in the production of biodiesel and allow high yields, above 90%, and with very few produced impurities. In addition, the use of waste oils as feedstock, which now accounts for 10% of feedstocks used in the production of biodiesel, avoids competition with agriculture. To present a complete life-cycle of oils in this review, a second part will focus on the valorization of the biodiesel by-product, glycerol. About 10% of glycerol is generated during the production of biodiesel, so it should be recovered to high value-added products, always based on bioprocesses. This review will also present existing techniques to extract and purify glycerol. In the end, from the collection of feedstocks to the production of CO2 during the combustion of biodiesel, this review presents the steps using the “greener” possible processes.