The miner must stop funding legal action to prevent a $46 billion claim over the dam collapse.
Joaquin Morales will be replaced on an interim basis by the agency's current prosecutor Claudia Rodriguez.
Researchers sampled the seabed of the Clarion-Clapperton Zone to assess the possible impacts of deep-sea mining.
This milestone marks the first metal production from Kabanga since the deposit’s initial discovery in 1975.