There's a couple things to consider here:
1. The paper filters in the HFCM and on the engine, in my truck are Motorcraft filters, FD-4616. When it comes to the paper filters, I won't use anything other than Motorcraft.
2. I don't like the "water in fuel" non-sense of my HFCM. Light comes on, drain it. Light comes on, drain it...repeat forever.
So, what I did, was I purchased a NAPA water separator and fuel filter and mounted them on the frame rail, between the fuel tank and the HFCM (the exact same way an AirDog would be setup). That particular NAPA water separator does a hell of better job with the water than the HFCM. In fact, I just had that pump replaced last week (because the pump was corroded) to the tune of $600 total (parts, labor, tax, shipping), not including the $85 tow fee to get it to the dealer.
With that being said, I don't know if you realized the NAPA filters were extras on top of the Motorcraft because if you did, and still think they are bad, that would be like saying the AirDog is a bad setup because that's essentially the exact same thing I have.