This paper concerns with the integration of rough set theory with the Best Worst method to evaluate information system performance within supplier selection problem of biofuel companies. First, a set of main criteria and sub-criteria are collected and then to include uncertainty in decision making, rough set theory is employed. The rough best worst method is applied for weighing and supplier evaluation with respect to information system performance and environmental impacts. Further, a case study is conducted for biofuel company supplier selection and the results imply the effectiveness of the approach in tactical performance evaluation. The best criteria effective on the green supplier selection of ISs performance is determined to be Quality.