A significant expansion of anaerobic digestion (AD) processes would certainly result in a reduction in the current dependence on fossil fuels. The operational costs, the large amounts of digestate generated and the expenses of dealing with it and the volatility of the fuel indexes represent major environmental and economical challenges to the diffusion of AD. Increasing the bio-products of AD could possibly help in increasing its profitability and limit these challenges. This study investigates the influence of mango starch and seed coats on the biogas produced from mango waste. To overcome the environmental challenges, the digestate was tested and its bio-fertiliser potential proven. The study reached the conclusion that the effect of the starch on the AD biogas of mango waste is low while the effect of the seed coats is quite high. This finding supports further investigations to evaluate the effect of the production of mango starch and seed coat-based products on the profitability of AD. The highest energy balance achieved was 65% at 32 °C, 3.93 g-VS organic concentration and 37% sludge concentration, which yielded a maximum CH4 yield of 62.5%. This finding encourages the application of gate fees for accepting bio-waste, which may help in overcoming its economic challenges.