Well, that's the North settled. If theres any rebel lords still breathing, theyre trippe damned by working with the deeply unpopular queen, the treachery of aiding the scots, and being associated by the flayer Percy, who then got killed in his own castle.
All the Crown has to do now is smash the Scots, cross the border and make them pay dearly for thinking they were ever strong enough to fight Engnland alone. Probably too soon to annex everything, but taking the border regions and burning the rest of the lowlands to the ground should do. The Highlands in this period are still essentially their own country with their own armies, so the English should sit back and watch the clans tear the weakened, kingless realm apart for a while, and focus on Ireland and France instead.
But so long as France is down, its curtains for an indepedant viable Scotland.