An intelligent control approach is proposed as an alternative for the friction stir welding of an aluminum alloy. A validated empirical model is re-written from transfer functions to a set of ordinary differential equations, allowing to observe the force dynamics as a function of inputs of interest. A defect-free set-point is proposed for exploiting available labeled experimental data which defines operational boundaries and a region in which the probability of achieving defect-free welds with good mechanical properties is the highest. An intelligent controller in the fashion of a Recurrent Neural Network is constructed. Computational experiments were carried out to verify the adequacy in disturbance rejection as well as to visualize the capabilities in achieving the proposed defect-free set-point by the controller. The intelligent approach is compared with a set of decoupled proportional-integral controllers and a linear model predictive control strategy. From this study it is concluded that the intelligent controller shows superiority and good applicability for the studied problem.