Olivia E,
In my view, keeping information about the same person in two different, overlapping, computer files is a recipe for disaster! However hard you try, you will update one but not the other, or will enter information differently in each, etc.
I put everything into the one big computer file (some 10,000 people now) including the couple of amateur one-name studies I'm doing. I use TMG (The Master Genealogist).
But my papers trails are in different family etc folders ..
Good luck,
Judy