Present estimates indicate India's bio-fuel demand as 0.5 billion gallons in 2012 which will grow to 6.8 billion gallons by 2022. While fossil fuel science and technology is well established, the scientific understanding and technological implications of biofuels are not clearly laid out. In recent years, a large number of assessments have been conducted to assess the greenhouse gas (GHG) emissions of biofuels. However, contradicting results were noted in the published articles. The current chapter attempts to understand the importance of triple bottom line (TBL) aspects for the life cycle sustainability analysis (LCSA) over the conventional life cycle analysis (LCA) of biofuels-based supply chain. Along with energy and environmental indicators, LCSA also evaluates the economic and social factors. Hence, a statistical assessment with multi-criterion decision-making (MCDM) analysis has been implemented to highlight and achieve coherence in conducting the sustainability analysis of biofuels supply chain.