I don't know all the boards and their functions off-hand. I actually didn't crack open the cage on our Virtua Cop, so I don't know the difference in the interlocking boardsets between the two.
I can tell you for certain that Daytona has an optional link board for the sitdown models, and if I'm not mistaken Virtua Cop had less headers on the filter board in the front, so it probably uses less interlock boards.
they may both be Model 2 games, but I think the daughtercards are different, could explain something.