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Copper is an issue with respect to its effects on invertebrates, it is not an issue for vertebrates. In fact, many treatments for fish and marine mammal ecto-parasites (i.e., invertebrates living on fish and marine mammals) are copper-based. That being said, I am not all that convinced that copper from bottom paint is all that big an environmental problem. It probably (almost certainly) does have some impact on the sediments in harbors. But it isn't nearly as soluble as are the compounds of organic tin used in bottom paints.
Relative to copper, tributyltin has a fairly high solubility, and it can move around in the environment much more easily. Organic tin definitely is/was a problem, as is both directly toxic to many invertebrates at very low concentrations, and acts as an endocrine disruptor in molluscs (most famously in whelks). It also bioaccumulates/bioconcentrates in marine mammals, and there is some evidence that it has played a role in mass strandings of toothed whales..
However, although inorganic copper is much less of an environmental problem, I suspect it is only a matter of time (and the advent of practical substitutes) before some sort of ban is implemented.
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