Same Problem on my 31'
The fastest way to get rid of the water is to drill a 1" hole in the bottom of the sump area. The rank, sewer like water with mold, scum and other smelling things will fill the sump. Once you have most of the water out, fill the area again with cleaners and go out sailing. You need to be over 30/35 degrees to get the rest of the rank water behind the bulkheads out and into the sump area. After several water rinces you will start to see a difference in the way your boat smells. This is a real design problem with the 31'. We need to do the fill and rince thing three times a season or the smell will knock you out. I guess new Hunters have a better solution for water below the floor but the 31' is a real problem.