I think your being confused because your making the wrong kind of measurement and getting strange results. Heres how the injectors work -
There is a common 12 volt supply that goes to the injectors. There is a resistor in series with the injector to limit the current. The return path after the injector goes back to the ECU. The ECU switches the lines between ground and 12v, which in turn allows current to flow through the injector or not.
Suppose the fuel supply could flow 1 litre per minute. If the injector was switched on totally ( had a constant supply of 12 v ), then 1 litre per minute would flow.
If the injector was rapidly switched on and off at an equal rate, then only 0.5 litres per minute would flow.
Suppose you switched the injector on for 1 second, then off for 3 seconds and repeated this rapidly, the on to off ratio would be 1:4 or 25% ( this means that the injector is only switched on for 25% of the time ). In this case the fuel flow would be 0.25 litres. This is how the duty cycle controls fuel rate. 100% and maximum fuel flows, 50% and half flows, 0% and none flows.
As for frequency, it doesn't matter, it can be anything. If you switched the injectors at 1 second on and 3 seconds off you would get the same fuel flow ( 25% ) as switching them at 0.1 seconds on and 0.3 seconds off ( still 25% ). It the average amount of time that determines the fuel flow, not the frequency.
The signals that you see on the ECU should be a switching DC voltage that switches rapidly between 0v and 12V. The actual speed it switches is unimportant, its the ratio of time@0V to time@12V that is.
You need specialised equipment to measure duty cycle, you can't measure it with a multimeter. Ideally you need an oscilloscope or a means of plotting the voltage versus time ( like the image above ).
I'll try and explain why frequency is unimportant and why your getting bad results. Frequency is measured by detecting a rising voltage and then waiting until the voltage drops and starts to rise again ( 1 complete cycle ). The time it takes to complete one cycle is measured and divided into 1 to give the frequency ( number of cycles per second )
Suppose it takes 0.25 seconds to complete one cycle. This gives a frequency of 1 second / 0.25 seconds = 4 Hz ( 4 cycles per second ).
Suppose you have an injector pulse that is switched on for 50% of the time ( 50% fuel flow ), and each pulse is 0.125 seconds on and 0.125 seconds off. One complete cycle would take 0.25 seconds which is 4 cycles per second ( 4 Hz ).
Suppose now the injector duty cycle is changed from 50% to 75% which gives 75% fuel flow. The injector is switched on for 0.1875 seconds and off for 0.0625 seconds. It still takes 0.25 seconds for one complete cycle ( 4 Hz ) but the fuel flow is 25% more.
It can be 1 cycle per second or 1 million cycles per second, if the on/off ratio ( duty cycle ) is the same, the same amount of fuel will flow.
The problem your having is with your test equipment. To measure frequency, you need to have some sort of repeating pattern to measure. As the injector pulse is varying, the positive and negative going slopes ( needed to measure frequency ) are all over the place. As the duty cycle varies, the pulse width varies and the edges of the pulses are zooming into each other and out again. A frequency counter will just try to 'best guess' what the frequency is. How frequency is measured is pretty complicated anyway, and best we don't start on that one
Trust me though, you should be looking at a DC signal that switches between ground and 12 Volts on those ECU pins, nothing else.