its possible I misunderstood your question
the filter must be between the intake and the unit, where it is sucking in, not where its blowing out
The way I understand my system is designed, and I have no HVAC experience.
There's a return vent in the ceiling that is feeding into the furnace, at the bottom of the furnace there's a slot for the filter cassette, below that there's a duct that takes the filtered air to the air handler, now what I'm trying to do is get rid of the built in filter and instead place a filter in the return duct.
My understanding is that you can never have two filters as it would cause the system to be overwhelmed, but I also understand that the way it is now there's no filtering for the 15 or so feet of ductwork between the return and the furnace, vs if the filter is at the return.
So I'm not sure what the purpose of having the filter built in is.