A method of operating an electronically controlled dual fuel compression ignition engine includes injecting a pilot ignition quantity of liquid fuel into an engine cylinder from a dual fuel injector in an engine cycle during an auto ignition condition. An amount of gaseous fuel is also injected into the engine cylinder from the dual fuel injector in the same engine cycle. The amount of gaseous fuel is divided between a pre-mix quantity of gaseous fuel, which may be injected about 90° before top dead center, and a post ignition quantity of gaseous fuel that may be injected after top dead center, with both quantities being greater than zero. An engine controller may change a ratio of the pre-mix quantity of gaseous fuel to the post ignition quantity of gaseous fuel responsive to changing from a first engine speed and load to a second engine speed and load. The pilot ignition quantity of liquid fuel is compression ignited, which in turn causes the gaseous fuel to be ignited. A pre-mix quantity of liquid fuel may also be included in order to speed the combustion process at higher engine speeds.