I like the two down set up better. You can place your hats and ride better.
Depends on how big you like your toms.
If the setup is a standard 8/10/12/14, I would do 3 up, 1 down. Shift everything up a size, like 10/12/14/16 and I'd go 2 up, 2 down.
My setup is usually a 1 up, 2 down 13/15/18 (or occasionally a 2 up, 2 down 12/13/15/18). I love all that power down low.