The rear mounted water separator will usually be pretty dark in color after a 10-15k interval. In most situations the black color comes, not from dirt, but from small particles called “asphaltenes”. They’re a tar-like byproduct of high pressure common rail fuel injection. The 25-30k psi fuel rail pressures tend to heat the fuel to extremely high momentary temperatures. When that happens, the asphaltenes are generated as a byproduct. They are harmless to the fuel system as they are soft a pliable but the filtration media in the two fuel system filters will capture them. The water separator, being the first in line, captures the vast majority of them. This is yet another reason why the filter intervals shouldn’t exceed 15k. It’s also a good reason why you should avoid running the fuel tank lower than 1/8-1/4 level. The quantity of fuel in the tank helps to dissipate heat in the fuel. The lower the tank level, the hotter the fuel will run as it has less volume to draw heat away. The hotter the fuel is entering the system, the more asphaltenes are generated and so on.
That's probably why mine looked so clean after the first change. I rarely let my 50 gal tank fuel level drop below 1/2 or at most on a long trip, 1/4.