In this work, production of inulinase was studied. Media formulation was optimized by experimental design and response surface techniques, as well as the pretreatment of the agro-industry residues used in the formulation of fermentation medium. Two agro-industry residues were investigated: sugarcane molasses (SCM) and corn steep liquor (CSL). Pretreatment with sulfuric acid was the most effective for clarification of SCM (pH 5.0, 24 h of resting time and final pH 4.0). Clarification of CSL was accomplished with phosphoric acid (pH 3.0, 24 h of resting time and final pH 5.5). A color reduction of approximately 70% was achieved for both substrates. The highest production of inulinase was obtained in a medium containing 100 g l −1 of pretreated SCM, 100 g l −1 of pretreated CSL and 6 g l −1 of Prodex Lac (yeast hydrolysate), yielding 1,139 U ml −1 .