Unwelcome as was the thought of a possible capture of Washington city, President Lincoln's mind was much more disturbed by many suspicious indications of disloyalty in public officials, and especially in officers of the army and navy. Hundreds of clerks of Southern birth employed in the various departments suddenly left their desks and went South. The commandant of the Washington navy-yard and the quartermaster-general of the army resigned their positions to take service under Jefferson Davis. One morning the captain of a light battery on which General Scott had placed special reliance for the defense of Washington came to the President at the White House to asseverate and protest his loyalty and fidelity; and that same night secretly left his post and went to Richmond to become a Confederate officer.

The most prominent case, however, was that of Colonel Robert E. Lee, the officer who captured John Brown at Harper's Ferry, and who afterward became the leader of the Confederate armies. As a lieutenant he had served on the staff of General Scott in the war with Mexico. Personally knowing his ability, Scott recommended him to Lincoln as the most suitable officer to command the Union army about to be assembled under the President's call for seventy-five regiments; and this command was informally tendered him through a friend. Lee, however, declined the offer, explaining that "though opposed to secession, and deprecating war, I could take no part in an invasion of the Southern States." He resigned his commission in a letter written on April 20, and, without waiting for notice of its acceptance, which alone could discharge him from his military obligation, proceeded to Richmond, where he was formally and publicly invested with the command of the Virginia military and naval forces on April 22; while, two days later, the rebel Vice-President, Alexander H. Stephens, and a committee of the Richmond convention signed a formal military league making Virginia an immediate member of the Confederate States, and placing her armies under the command of Jefferson Davis.

The sudden uprising in Maryland and the insurrectionary activity in Virginia had been largely stimulated by the dream of the leading conspirators that their new confederacy would combine all the slave States, and that by the adhesion of both Maryland and Virginia they would fall heir to a ready-made seat of government. While the bombardment of Sumter was in progress, the rebel Secretary of War, announcing the news in a jubilant speech at Montgomery, in the presence of Jefferson Davis and his colleagues, confidently predicted that the rebel flag would before the end of May "float over the dome of the Capitol at Washington." The disloyal demonstrations in Maryland and Virginia rendered such a hope so plausible that Jefferson Davis telegraphed to Governor Letcher at Richmond that he was preparing to send him thirteen regiments, and added: "Sustain Baltimore if practicable. We reinforce you"; while Senator Mason hurried to that city personally to furnish advice and military assistance.

But the flattering expectation was not realized. The requisite preparation and concert of action were both wanting. The Union troops from New York and New England, pouring into Philadelphia, flanked the obstructions of the Baltimore route by devising a new one by way of Chesapeake Bay and Annapolis; and the opportune arrival of the Seventh Regiment of New York in Washington, on April 25, rendered that city entirely safe against surprise or attack, relieved the apprehension of officials and citizens, and renewed its business and public activity. The mob frenzy of Baltimore and the Maryland towns subsided almost as quickly as it had risen. The Union leaders and newspapers asserted themselves, and soon demonstrated their superiority in numbers and activity.

Serious embarrassment had been created by the timidity of Governor Hicks, who, while Baltimore remained under mob terrorism, officially protested against the landing of Union troops at Annapolis; and, still worse, summoned the Maryland legislature to meet on April 26—a step which he had theretofore stubbornly refused to take. This event had become doubly dangerous, because a Baltimore city election held during the same terror week had reinforced the legislature with ten secession members, creating a majority eager to pass a secession ordinance at the first opportunity. The question of either arresting or dispersing the body by military force was one of the problems which the crisis forced upon President Lincoln. On full reflection he decided against either measure.

"I think it would not be justifiable," he wrote to General Scott, "nor efficient for the desired object. First, they have a clearly legal right to assemble; and we cannot know in advance that their action will not be lawful and peaceful. And if we wait until they shall have acted, their arrest or dispersion will not lessen the effect of their action. Secondly, we cannot permanently prevent their action. If we arrest them, we cannot long hold them as prisoners; and, when liberated, they will immediately reassemble and take their action. And precisely the same if we simply disperse them: they will immediately reassemble in some other place. I therefore conclude that it is only left to the commanding general to watch and await their action, which, if it shall be to arm their people against the United States, he is to adopt the most prompt and efficient means to counteract, even if necessary to the bombardment of their cities; and, in the extremest necessity, the suspension of the writ of habeas corpus."

Two days later the President formally authorized General Scott to suspend the writ of habeas corpus along his military lines, or in their vicinity, if resistance should render it necessary. Arrivals of additional troops enabled the General to strengthen his military hold on Annapolis and the railroads; and on May 13 General B.F. Butler, with about one thousand men, moved into Baltimore and established a fortified camp on Federal Hill, the bulk of his force being the Sixth Massachusetts, which had been mobbed in that city on April 19. Already, on the previous day, the bridges and railroad had been repaired, and the regular transit of troops through the city reëstablished.

Under these changing conditions the secession majority of the Maryland legislature did not venture on any official treason. They sent a committee to interview the President, vented their hostility in spiteful reports and remonstrances, and prolonged their session by a recess. Nevertheless, so inveterate was their disloyalty and plotting against the authority of the Union, that four months later it became necessary to place the leaders under arrest, finally to head off their darling project of a Maryland secession ordinance.

One additional incident of this insurrectionary period remains to be noticed. One John Merryman, claiming to be a Confederate lieutenant, was arrested in Baltimore for enlisting men for the rebellion, and Chief Justice Taney of the United States Supreme Court, the famous author of the Dred Scott decision, issued a writ of habeas corpus to obtain his release from Fort McHenry. Under the President's orders, General Cadwalader of course declined to obey the writ. Upon this, the chief justice ordered the general's arrest for contempt, but the officer sent to serve the writ was refused entrance to the fort. In turn, the indignant chief justice, taking counsel of his passion instead of his patriotism, announced dogmatically that "the President, under the Constitution and laws of the United States, cannot suspend the privilege of the writ of habeas corpus, nor authorize any military officer to do so"; and some weeks afterward filed a long written opinion in support of this dictum. It is unnecessary here to quote the opinions of several eminent jurists who successfully refuted his labored argument, nor to repeat the vigorous analysis with which, in his special message to Congress of July 4, President Lincoln vindicated his own authority.

While these events were occurring in Maryland and Virginia, the remaining slave States were gradually taking sides, some for, others against rebellion. Under radical and revolutionary leadership similar to that of the cotton States, the governors and State officials of North Carolina, Tennessee, and Arkansas placed their States in an attitude of insurrection, and before the middle of May practically joined them to the Confederate government by the formalities of military leagues and secession ordinances.