To clarify, you will never-ever be able to record native mode through the DV port because in native mode, no data is sent to the DV port.DavidBeier said:For recording format, I'm gonna suggest you wait for the cineporter which will cost the same as a FS-100 but let you use Native mode with it's 2.5 times more space and variable frame rates (also holds 160 gigs). You can also just get a $1000 laptop and record to that instead of the FS-100. It'll cost less and apparently some of the new capturing applications will let you do native mode in the future. You can also get a P2 store and hot swap cards if you have assistant.
What you can do (and this is probably what David meant) is that a program or device capturing the DV stream will be able to determine which frames are duplicates, and eliminate the duplicates from the file that is recorded to disk. Serious Magic's DVC Rack does this.