If you are using neoprene disks to cover the holes than you shouldn't have any water on the top
Did you use a hole saw to make the holes or did you do it free hand with an exacto knife or something?
2" hole saw. The lid isnt perfectly flat, its grooved just like any rubbermaid roughneck. Its not just one of the holes, its several of the holes. followed the directions on stinkbuddies.com exactly.