I am an idiot savant as far as engines go. I was forced to learn something about my 7.3L because of my fuel tanks' delamination problem. So I am "Learning slowly" and developing a working understanding about that particular engine. The oem 7.3L has fuel screens in the fuel tank which are removed during the Hutch Mod and are replaced with a fuel strainer (Racor PS120) on the frame rail pre-pump. (Apparently the 6.0L does not have these screens in the tank.) See mine but there are many others:
Hodgson's Hutch Mod/Frame Rail Pre-Pump Strainer
http://www.ford-trucks.com/forums/12028 ... ainer.html
We have a main filter-water separator in the engine valley between the valve covers. We don't have a secondary filter.
My guess is that you have a secondary filter for a reason. And that reason is to protect the fuel injectors at any cost. I have looked at mine through a stereoscope and some of the weensy teensy seven nozzle holes look clogged. So, in addition to doing what you are doing, I will be replacing my fuel pump and flushing the fuel lines backwards and removing the fuel rail plugs on the back of each head and flushing the fuel galleries out.
If you have had a delamination problem, if it were me, I would at least replace the fuel pump and disconnect the fuel line at the tank and flush them backwards. And I would replace all your (two?) filters every month until clean. Consider this: The fuel pump acts as a macerator. It takes the goo and flakes from the tank delamination and macerates them making the delamination material very very very fine. So fine that it might make it past your filters. So buy good filters and change them often.
But remember, I am an idiot savant (or less) about this stuff. So, before you do anything, start reading and asking questions about your engine here:
http://www.ford-trucks.com/forums/forum107/