The action is one of several recent moves by the Biden administration to protect environmentally sensitive lands from commercial interests.
Last week, the administration moved to establish a 20-year moratorium on mining near the Boundary Waters Canoe Area Wilderness in Minnesota, effectively blocking a long-disputed proposal for a copper and nickel mine. And the administration reinstated protections in the Tongass National Forest in southeastern Alaska, overturning a Trump administration decision that would have allowed logging there.
Since it was first proposed in the early 2000s, the Pebble mine project has had a roller-coaster existence, its prospects lurching from bright to bleak over the years.
In the late 2000s it gained support from Alaska’s governor at the time, Sarah Palin, a pro-development Republican. But the E.P.A. in the Obama administration moved to block the mine in 2014, citing the Clean Water Act and the risks to the salmon fishery.
The agency under President Trump then reversed the Obama-era ruling, giving the project new life. Late in the Trump administration, however, after opposition from some Republicans, including the president’s son Donald Trump Jr., an avid sport fisherman, the United States Army Corps of Engineers denied the project a critical permit.
The Pebble partnership has appealed the corps’ decision. Radhika Fox, the assistant E.P.A. administrator for water, said that if the company were to succeed in the appeal, the Corps still could not approve the project, given the E.P.A. determination, unless it were somehow changed and the new proposal “does not have the similar adverse effects of this proposal.”
Senator Maria Cantwell, Democrat of Washington, one of the first lawmakers to oppose the project, said she was “ecstatic” about the E.P.A. action. Washington State residents hold about a quarter of the commercial permits to fish for Bristol Bay sockeye, and much of the harvest passes through the state’s ports.