> If a mud-collection operation transported lots of abyssal mud to the surface and then dispersed it into the water column, it would affect pelagic life in that location, but not coral
First of all, you are forgetting that all corals are pelagic species.
The "too deep to worry about" and "don't interact with anything we interact with" is also wrong both as concept and also as fact.
Lophelia reefs are the coral reefs of temperate areas. Can be found between 30 and 3000 m deep.
Until relatively recent times, we didn't even knew that we have coral reefs in UK, Norway or Canada. Still we don't know a lot about this places, but coral reefs are among the most rich ecosystems in the planet supporting an astonishing amount of biodiversity. As any other reef we know that they provide refuge for a (still poorly know, but probably very high) number of crustaceans, other invertebrates and fishes. It seems that Is an important refuge for sharks for example. Sharks play a role in keeping healthy marine ecosystems.
Next Cape Cañaveral growths a similar (much shallower) cold reef in a relatively narrow band that was the first marine area closed for research in USA. The Oculina Bank area of particular concern. Many fisheries depend on the Oculina reef. Their damage was directly linked with the demise of Florida's grouper fisheries for example.
We are also also slowly understanding how complex are soft bottom ecosystems. Much more complex that we previously though. Under the silt there are the equivalent of fields of grasses and shrubs but carved on negative space.
Is not just sand, is also 4000 years old antipatharians, is really smart predators that hold the key to made robots coated in one of the most resistent bio-matherials known in the planet. One that is able to stand high pressures, but that is also light, and that can also generate ultra-fast movements enduring well the mechanical damage
In silt bottoms we can found animals able to literally make the water boil around them. They can raise the temperature of a tiny amount of water to around 4000 degrees C. And they can do it in less than a second. Not, I'm not joking.
And there is also the "too deep to worry about" and "don't interact with us" small Aequorea, that blew our minds and changed forever how we, humans, do modern biosanitary research in the entire planet.
Lots and lots and lots of valuable things for humans.