You have to go pin by pin (or pin-class) and determine
what the "do nothing" state is; that's generally where
the passive pull-to should be. If reset is active low, you
want not-reset (high). Same idea for interrupt pins if you
don't want constant interruption. Data, like parallel ports,
can probably go either way and just let the software
folks know what to expect.
Often datasheets have application or test method figures
which yield clues about what's considered normal.