There was a program a few months back that came in the 3DWorld Magazine, unfortunately right now I don't have that episode on me so I can't recall the name.  I haven't completely explored it, but it seemed to do pretty well with seamless textures.  I'll attempt to find it while I'm at work, if not I'll come back on later tonight and let you know what the name of the program is.

Not sure if you've seen their tutorials yet or not, but I suggest going over to www.geekatplay.com.  I know they have a really good underwater tutorial and if I'm not mistaken, they should have something about making troubled water.  Hope it helps.

Not sure if we are allowed to do more than one entry, but I'm going to post both of them just in case.  If we are limited to one only, I want to choose the second one.  Thanks

Atlas

 Hideaway