In the present experimental study, dissimilar aluminum alloy AA5083 and AA6082 were friction stir welded by varying tool shape, welding speed and rotary speed of the tool in order to investigate the effect of varying tool shape and welding parameters on the mechanical properties as well as microstructure. The friction stir welding (FSW) process parameters have great influence on heat input per unit length of weld. The outcomes of experimental study prove that mechanical properties increases with decreasing welding speed. Furthermore mechanical properties were also found to improve as the rotary speed increases and the same phenomenon was found to happen while using straight cylindrical threaded pin profile tool. The microstructure of the dissimilar joints revealed that at low welding speeds, the improved material mixing was observed. The similar phenomenon was found to happen at higher rotational speeds using straight cylindrical threaded tool.