Morton alone stood aloof. He demanded an assurance of the Queen's sanction to the deed; and no such assurance was given him. On the contrary Mary's mood seemed suddenly to change. Her hatred to Darnley passed all at once into demonstration of the old affection. He had fallen sick with vice and misery, and she visited him on his sick-bed, and persuaded him to follow her to Edinburgh. She visited him again in a ruinous and lonely house near the palace in which be was lodged by her order, on the ground that its pure air would further his recovery, kissed him as she bade him farewell, and rode gayly back to a wedding-dance at Holyrood. If Mary's passion had drawn her to share Bothwell's guilt, these acts were but awful preludes to her husband's doom. If on the other hand her reconciliation was a real one, it only drove Bothwell to hurry on his deed of blood without waiting for the aid of the nobles who had sworn the King's death. The terrible secret is still hid in a cloud of doubt and mystery which will probably never be wholly dispelled. But Mary had hardly returned to her palace when, two hours after midnight on the ninth of February, 1567, an awful explosion shook the city. The burghers rushed out from the gates to find the house of Kirk o' Field destroyed and Darnley's body dead beside the ruins.

The murder was undoubtedly the deed of Bothwell. It was soon known that his servant had stored the powder beneath the King's bed-chamber and that the Earl had watched without the walls till the deed was done. But, in spite of gathering suspicion and of a charge of murder made formally against Bothwell by Lord Lennox, no serious steps were taken to investigate the crime; and a rumor that Mary purposed to marry the murderer drove her friends to despair. Her agent in England wrote to her that "if she married that man she would lose the favor of God, her own reputation, and the hearts of all England, Ireland, and Scotland." But whatever may have been the ties of passion or guilt which united them, Mary was now powerless in Bothwell's hands. While Murray withdrew to France on pretext of travel, the young Earl used the plot against Darnley into which he had drawn the lords to force from them a declaration that he was guiltless of the murder and their consent to his marriage with the Queen. He boasted that he would marry Mary, whether she would or no. Every stronghold in the kingdom was placed in his hands, and this step was the prelude to a trial and acquittal which the overwhelming force of his followers in Edinburgh turned into a bitter mockery. The Protestants were bribed by the assembling of a Parliament in which Mary for the first time gave her sanction to the laws which established the reformation in Scotland. A shameless suit for his divorce removed the last obstacle to Bothwell's ambition; and a seizure of the Queen as she rode to Linlithgow, whether real or fictitious, was followed three weeks later by their union on the fifteenth of May. Mary may have yielded to force; she may have yielded to passion; it is possible that in Bothwell's vigor she saw the means of at last mastering the kingdom and wreaking her vengeance on the lords. But whatever were her hopes or fears, in a month more all was over. The horror at the Queen's marriage with a man fresh from her husband's blood drove the whole nation to revolt. The Catholic party held aloof from a Queen who seemed to have forsaken them by a Protestant marriage and by her acknowledgment of the Protestant Church. The Protestant lords seized on the general horror to free themselves from a master whose subtlety and bloodshed had placed them at his feet. Morton and Argyle rallied the forces of the Congregation at Stirling, and were soon joined by the bulk of the Scottish nobles of either religion. Their entrance into Edinburgh roused the capital into insurrection. On the fifteenth of June Mary and her husband advanced with a fair force to Seton to encounter the Lords; but their men refused to fight, and Bothwell galloped off into lifelong exile, while the Queen was brought back to Edinburgh in a frenzy of despair, tossing back wild words of defiance to the curses of the crowd.