I have a feeling that stripping out the old version of this from my expansion incorporated set is going to force a sanity check.
Hopefully, they changed the expansion symbol.
Just leave it in. As you play and run across the symbol, take the card out and draw again.
And for what it is worth, these decks should be separate already: Exhibit Cards (22), Barred from Neighborhood (18), Benefits (4), and Detriments (4)
You will just need to find these cards: Arkham Location Cards (45), Mythos Cards (18), Gate Cards (27), Spells (21), Allies (7)