caranthir: Maybe, in principle, under Japanese rules, if we don't take the enemy stones inside the seki eyes off the board, they wouldn't score at the end of the game (area inside seki eyes doesn't score anyway). However, this really is an impractical problem since if such were the rule, then we would remove the stones anyway at the end of the game. (I doubt we would have to remove them; rather, it seems likely that we would treat them as any freely removeable dead stones. Would like to check the current Japanese rules for that). Whatever the case, under Chinese rules there is certainly no difference.
It does proof a point. Even taking out one stone gains a point if it is in a seki. I had to think about it, but yeah, it is.