how does the system work exactly to bypass the fuel pump resistor on 88-90s?
Now your question has the word "exactly" in it. So keep in mind both FP relay and 02 Heater relay that the ECU controls the coil side of each relay. Meaning power (B+) to the fuel pump motor, with or without the ballast resistor, is switched from the fusible links. The same thing is applied to the Starter Relay except that's controlled by the IGN SW with the key in the CRANK position. Back to the drawing board or now are we good? Great question.