The Trump administration’s agreement Friday to temporarily fund the government for three weeks, ending a record-breaking shutdown, creates fresh uncertainty for the courts, federal agency lawyers and private attorneys who have grappled with delayed litigation for more than a month now.

The U.S. Justice Department had asked federal trial and appellate courts across the country to pause thousands of civil cases over the past month, amid the lapse in federal appropriations that has left hundreds of thousands of federal workers furloughed without pay.