Hi, Kiwi - freeboard is dependant on the load. You surely understand that when a vessel has a loading capacity of 500 tons (as an example) and it is only loaded with 100 tons it should have a lot of freeboard. Actually, during Operation Sea Lion, the limiting factor on the barges would always be space, not weight.
Secondly, the barges were much more seaworthy than usually believed. The German 17th infantry division made some bad-weather towing trials and found that they did well in up to wind force 6-8 - sea state 4-6. That's pretty rough as the Channel goes. There were several reasons why the barges were better in this respect than feared. BTW, the speed of the towing convoys was set at 5 knots - almost 9 km/h.
Did you know that the Allies used several hundred barges during Overlord? In quite bad weather, too. Worked fine.
I am not sure if the barges' speed would influence much on the results of destroyer fire against them......

.... But, to fire at them the destroyers would have to be there in the first place. Actually, very few destroyers were in the Channel area ultimo September. Besides, none had 4.5" guns. the V&W's and Hunts had 4" guns. These were the main types available. Not that it makes much difference......