As part of the deal that still requires court approval, the Oklahoma City, Oklahoma, company will pay a $600,000 fine.
The government said Chesapeake violated a section of the Clean Water Act when in 2008 it ordered the placement of gravel as part of a project to upgrade a road in West Virginia.
That road sometimes floods with waters that are under federal control, so Chesapeake needed a permit from the U.S. Army Corps of Engineers to do the work.
Chesapeake has since removed the gravel and restored the site, it said.
(Reporting By Anna Driver)
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