The sofic groups question was the outstanding question about sofic groups. Almost everyone thought that non-sofic groups existed, and there were plausible candidates, but proving a group was non-sofic was out of reach. Now that we know how to do it once, we can probably do it a lot more.
The Connes rigidity conjecture I think people thought was false, but it was a provocative claim to make. The significance of conjectures is frequently not that the answer to the question is "yes", but that we don't know how to answer the question. And now, apparently, we do.