A novel approach for predicting the intermetallic compound formation during friction stir welding of AA6061 to commercially pure copper has been developed, in addition to their effect on mechanical properties. The temperature distribution of the aluminium to copper weld nugget determined by a finite element model, the use of an Al-Cu phase diagram and the elemental concentration of copper and aluminium in the weld nugget have been combined to predict and validate several intermetallic compounds present in the different zones of the weldment. The results of performing butt-welding of these dissimilar metals using the friction stir welding process demonstrated that the highest ultimate tensile strength of 194.5 MPa was achieved at 1500 rpm tool rotational speed, 100 mm/min traverse speed and a zero-tool offset.