Was your tub/tote supposed to be water tight -- woudl it hold water if youturned it upside down with water in it? If not you probably will NEVER make it work.
My best advice to you is to check this thread and if you still have questions, PM the author.
http://www.marijuanapassion.com/forum/showthread.php?t=2799
Remember though that you have an active spray of water side ways trying to spray through the seal which is a lot different than condensation trying ot drip off of the bottom of the lid.
My only other advice is to get some of the closed foam type weather striping like fleshtain suggested and glue it in. Either that os some very flexible hollow rubber tubing and glue it in BUT anything you put in must let the lid snap in place or it will leak.
Your mainfold may be to swhort now too.
Quite honestly having sued bubble cloners, mister cloners and spray cloners as well as Oasis foam, perlite, and soil, I have no use for the cloners. I have one here in my office that I'll never use again. You can't improve on 100% and that is what I get from Oasis foam, perlite and soil when I watch my technique and especially keep the cloning area at the right temperature. None of those mediums have any leakage problem and are just a easy if not more so to use.
The leaks and mess are what turned me away from the cloners plus the success achievable with the simpler methods.
Good smoking.