1. Two CPH's would be seen as exactly that. So, what happens on each is separate. So, you could move pigs onto one site and move pigs off the other.
2. Movements on trigger a standstill on all stock on that CPH. So, pigs on mean 20 days for pigs and 6 days for all other stock. Sheep on is 6 days for everything.
3. Yes, you can always go to abattoir or slaughter market.