you have to keep in mind this fact, TMO was designed by Ducimus and the specific things he adjusted that controls everything to do with the AI and sensors to work with the environmental mod that's built into it.
making changes to the environment WILL change things with the sensors and the AI. the extent to which you see it and its noticed is unknown based on the changes you make so a very large part of what makes TMO can and may be messed up by doing so.
just something to consider if your only complaint is your not happy about the water color so is color of the water worth risking the side effects that might result from your efforts to change it.
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