A fuel injector includes an injector housing having a nozzle assembly with a nozzle piece, and a nested check assembly of an outer check and an inner check. Spray orifices are formed in the nozzle piece in a first orifice set equipped with a first spray duct set and a second orifice set equipped with a second spray duct set. The inner check can be opened to spray fuel from the first orifice set and the outer check can be opened to spray fuel from both the first orifice set and the second orifice set. The outer check is non-rotating while the inner check can be permitted to rotate during service. Spray ducts associated with the first orifice set may have a different duct length and duct inside diameter than spray ducts associated with the second orifice set. The first orifice set may include lower-flow spray orifices and the second orifice set may include higher-flow spray orifices. Related methodology is also disclosed.