Turn off automatic seating suggestions, since you don't want to be bothered with that.
You might want to simply add additional rounds which you jump to when you hit the final table. For example, let's say so far you never make it past round 7 before there are only 3 players remaining at each table. Your schedule probably goes to round 8 or 9, just in case. If so, start the blinds over at round 10 and repeat the rounds schedule. When you get down to 3 at each table, set the current round to round 10. If some tournament DOES make it past round 9 before there are only 3 players remaining at each table, you can always insert new rounds while the tournament is running.
I'm not sure if that helps or not, but it's a suggestion. I don't know what kind of charts/statistics are important, but at least you don't have 2 tournaments. And if you were to simply set the round back to round 1 (instead of forward to round 10) then you'd have some players busting out in round 1, and other players who busted out in round 1 who *really* made it to the final table...