I took the cover off so I could inspect and thoroughly flush/vacuum/magnet inside. If I recall correctly, others said it wouldn't be necessary.
My procedure was take both drain plugs out, screen out(eventually), side opposite the screen (there's a small tube on out side, screen rest in 'pocket' ) and maybe ten gallons of diesel.
Put a screen from sherwin williams on a 5 gallon bucket (for straining paint) under the drain plugs to capture what was flushed out, And just kept magnet/flushing/ repeatedly. Used a weed sprayer to get in hard to reach spots.
In my opinion, this worked best. After pouring in the diesel there was still shavings left in crevices. This took me by myself a long time, as I kept at it until there were no more shavings.
Changed fluid/filters and cleaned screen within about 20 hours of use (if I recall). Didn't get much out then or the next time.
The filters are difficult to get to seal with the thin gasket, I found it was best to hold the assembly in place and tighten down, keeping the spinning to a minimum.
I used some fluid from TSC that was Deere spec, for the first fill and use. I have since gone with hy-gard, it's expensive.