Noah, you can do it either way.
I just did a test with P2 shooting DV at 24pA
The remove advanced pulldown with FCP 5.1.2 actually
works when you capture from P2 now…..
If you forget to check the box yes you can select the clip
and go Tools > Remove Advanced Pulldown.
Versions below 5.1.2 the option to Remove Advanced Pulldown during
P2 capture does not work.
You then have to use Tools > Remove Advanced Pulldown.
Using Cinema Tools is an option to batch process a bunch
of clips so you don’t have to sit there and do it
one at a time.