You may have to off back to the 70s or 80s and i have seen keepers carded for making the pitch. Seem to recall Graham Moseley (?) was once for marking the centre of the goal on the six yard line, and I'm sure the likes of Shilton and Clemence were also.
Penalties - Stupid idea, we would never have had the exhilaration at Stoke last season, as the ball would have been dead as soon as Ryan block the penalty.
Handball - Isn't this what referees are already doing anyway
Limited Subs - Pointless and what happens if a player is actually injured. So...