The main aim of the present work is to correlate the morphological changes observed in the modified PP/PA6 fifty/fifty blends molded at confined flow conditions with both their mechanical and thermal properties and the kind and the amount of the interfacial modifiers used. Both transmitted light optical microscopy in the positive phase contrast mode, PC TOM, and field emission scanning electronic microscopy, FE SEM, were the used techniques for, respectively, general morphology overview and fractures surface analysis. The interfacial modifiers, a succinic anhydride, aPP-SA, and a succinyl-fluorescein, aPP-SF/SA, grafted atactic polypropylenes obtained and well characterized in authors’ laboratories came from the chemical modification of an atactic polypropylene industrial by-product. The amounts of any of both the interfacial modifiers came coded by the Box-Wilson experiment design methodology applied to the overall PP/PA6 binary system, watching that the interfacial agent was not a third component on a ternary blend but a true interfacial modifier in a binary one. All the studies were carried out over suitable specimens according to each test procedure with no further material manipulations to preserve at any moment the morphology of the blends as they emerge from the compression molding step at confined flow conditions.