Agricultural crop residues are available in abundance in Asian countries such as the Philippines. These residues have high potential as feedstock to produce clean and high-value energy products, to mitigate global warming and reduce dependence on fossil fuels. This study investigated the carbon footprint and energy performance of biohydrogen production system through gasification of different waste agricultural biomass. The proposed system includes biomass transport and pre-processing, gasification process, and biohydrogen enrichment and purification technologies. Incorporation of the carbon uptake during biomass growth phase reduced the carbon footprint of the system. Sensitivity analysis showed that increasing C/O and H/O ratio improves the quality of the syngas produced, while increasing C/H ratio results to lower biohydrogen yield. In selection of feedstock mix, it is preferred to maximize C/O and H/O ratio while reducing C/ H ratio of the feedstock composition.