A method and system for operating a two-stroke engine includes a fuel system comprising a fuel pressure sensor, fuel temperature sensor and a fuel injector and a controller in communication with the fuel pressure sensor and fuel temperature sensor. The controller controls the fuel injector with a fuel pulsewidth determined by determining a beginning time of a window for measuring fuel pressure, determining an ending time of the window, measuring fuel pressure between the beginning time and the ending time, determining a fuel pulsewidth based on the fuel pressure and fuel temperature and injecting fuel into the two-stroke engine in response to a desired fuel mass.