Humm, well, it seems like the plumbing we're talking about sealing will generally be out in the system somewhere. I think it isn't really a matter of where the filter is located, unless you are talking about sealing the coupling leading into the filter.
Almost any other place in the system, there are going to be cylinder seals and valve spool seals and such that can be contaminated before the fluid gets back to the filter whether the filter is on the return side or the pressure side.
Filters are a good thing, but I think the first line of defense keeping a hydraulic system healthy is to keep contaminants out in the first place. You would like to hope that any contaminants you cannot keep out, will end up in the flter, but you can't count on that no matter where it's located.
Its like cars; wear seat belts, but preferably avoid collisions.