Guess I don't understand waterblocks

So I did the fix for the waterblock crashing and just started adding water to my maps in TGEA 1.8.1. So my first test was to create a limited size start of an ocean. Just enough so when the player starts the map they have something pretty to look at. So I was adjusting the scale of the block when I came across what I think of as a problem. But maybe I'm just missing something. The third number in the scale is for depth right? I've adjusted this so that my water goes down right to the terrain where it's supposed to. The only problem is when the player is down there it doesn't look like he's underwater. What I'm saying is the underwater color only goes down so far despite that the water actually going further down. Get what I'm saying? Maybe I missed something or maybe I'm just tired. Anyways, would appreciate any help.