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In this study, the fault tolerant Kappa number control in continuous cooking application is investigated. The Kappa number is one of the quality measures in the pulp cooking process and usually the only on-line measurement. It is a measure of the residual lignin content in the pulp. The Kappa number is mainly controlled by the cooking temperature. In this study, Kappa number control (temperature control) is carried out using Gustafson’s Kappa number model for the prediction of the blowline Kappa number. New temperature set point is solved iteratively based on the difference between the predicted and target blow-line kappa numbers. The input variables are monitored using self-organizing map (SOM). The data is collected from industrial conventional continuous cooking digester. Good results were achieved using the proposed approach.