For the first time, a two‐stage decision support framework for equipment selection, applied to biomass separation, is presented. In the first stage, the framework evaluates from a number of equipment based on the process requirements and outputs only those that offer a technically feasible separation. In the second stage, the analytic hierarchy process is applied for performing a multicriteria decision analysis to select amongst the feasible equipment based on separation performance and energy consumption criteria. This approach systematically considers the relative importance of those different alternatives and selection criteria by pairwise comparisons. The output of the framework is an overall ranking of equipment as well as a sensitivity analysis of the results for different weighting of the criteria. These results can be used to equip practitioners in the field of bioseparations with a tool for making more consistent and better‐informed equipment selection decisions.