John Bercow has clearly made the only possible ruling that is allowed. He'll never get his peerage from a Tory government now, but then maybe there won’t be one around for long.

One suggested way round would be to prorogue the session, and then have a new one, and run the old deal through again. Apparently the Queen would need to approve it, but that would mean interfering in the political process - and the same would be said if she refused. Since the last time Westminster was prorogued in the middle of a session was in 1628, by Charle. Since the ultimate outcome a few years later it had him getting his head chopped off, she might perhaps be a tad disinclined to risk it.

Perhaps the next antiquated procedure they'll try reviving would be the Act of Attainder, where a person could be executed without any need for a trial, last used in 1728. I suspect they may never have got around to covering that when the death penalty was scrapped, in which case that death penalty might still apply.