Both. He restored the Multiverse, but with some changes, including the fact that Earth-1, Earth-38, and Black Lightning's Earth were now merged into Earth-Prime (probably Earth-3 as well, given that Jay Garrick and his wife were established to be living on Earth-Prime now). But we saw that the other worlds of the Multiverse had been restored or new ones created, including the universes of Stargirl, Titans, Doom Patrol, and the Green Lantern movie. Implicitly, every universe destroyed in the Crisis was restored, because CoIE essentially established that every DC screen universe past and present is part of the same multiverse, and that includes the ones still ongoing. So naturally they all had to be restored. The original Earth-2 seems to be the only exception, since it was destroyed before the main antimatter wave. Stargirl's Earth was established as the new Earth-2, as it's based on comics that were set on Earth-2 before the original Crisis.
However, the citizens of Earth-Prime don't know the multiverse survived. They believe they're the only Earth left, but they're not.