The analysis in the BiOp found that the FCRPS did jeopardize the existence of the listed fish in the Columbia Basin, and identified 199 "Reasonable and Prudent Actions" (RPAs) that the federal action agencies needed to undertake to mitigate for the effects of the hydrosystem. In addition, the federal agencies issued an "All H Paper" describing the habitat, hatchery and harvest actions that federal agencies and others would collaborate on to help recover the fish.

The 2000 BiOp was challenged in court, and in June 2003, Judge James A Redden remanded, or handed back, the 2000 BiOp to NOAA Fisheries to resolve several deficiencies, including reliance on federal mitigation actions that have not undergone ection 7 consultation under the Endangered Species Act and reliance on range-wide off-site non-federal mitigation actions that are not reasonably certain to occur. The Judge denied plaintiffs' motion to vacate the BiOp during the remand, and it remained in place as NOAA addressed the deficiencies. This web page hosts a variety of documents related to NOAA Fisheries' work to address the court's rulings.