The drains in the sump should be in a chamber where the water level is normally stable. I know what your saying about the level going up and down on restart.
Do you have them in the skimmer section? Thats the best place for them. Even when restarting, the skimmer section should never drop below a given level. Mine is 10". This is due to the baffles being at 10", and even when the water level drops elsewhere in the sump, the minimum in the skimmer/drain section will always be the same.
Something else about the pipe being under the water is that you can have the siphon a little bit deeper than the other pipes. It helps promote the siphon on restart.
There was also something else in his thread that mentioned drilling a small hole in one of the ends of the pipes, but I don't remember for sure where that is.
It seem like your right about there though and your just minor adjustments away from being done
