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This paper discusses the outputs of the exploration for the optimal location of a biorefinery within the Philippines using mixed-integer linear programming (MILP) in Matlab, stochastic analysis and modulating under “ceteris paribus” to put more emphasis on the seaweed supply. The biorefinery is part of a supply-chain involving farms, seaweed farms and international ports. It investigated the availability of seaweeds within the provinces and environmental risk factors on seaweed production using stochastic analysis. The capacity of the biorefinery considered to be dependent on the availability and out of stock risk. The result of the study showed that the integration of mixed – integer linear programming and stochastic analysis could locate a potential optimal location of a biorefinery in the Philippines. It was found out that Panay Island is the optimal location for a biorefinery for seaweeds and bamboo. The study was carried out to fulfill the long term ambition in order to develop infrastructure in order to produce high valued products of biocomposites that come from Philippines natural resources.