After a furlough, Adrian Fay stayed at the hospital in Odd Fellows Hall in Washington, D.C. at the end of January. Fay was transferred to the U.S. General Hospital in Nicetown, a nieghborhood of the city of Philadelphia, Penn. Fay would be there until mid-May when he was transferred to a U.S. General Hospital at 51st St. and Lexington Ave. in New York City. In June, Fay was transferred to Fort Wood in New York Harbor (Fort Wood would eventually become the base for the Statue of Liberty). In late June, Fay made his way south to rejoin the 94th Regiment.

From early July to early September, Fay traveled from New York City to Fort Ethan Allen in D.C. He then to went to Camp Distribution in Alexandria and spent some time at Rappahannock Station, VA, in August. In September, Fay was with the 94th again, but was taken ill and, on October 12, 1863, was sent to Carver Hospital in Washington, D.C. Finally, from November to the end of the year Fay was stationed on David's Island, off Pelham, N.Y.

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The year of 1863 for the now combined 94th and 105th regiments was intense. The regiment participated in the Chancellorsville Campaign and suffered the loss of a number of officers at the Battle of Chancellorsville from April 30 to May 6, 1863. The regiment engaged in the Battle of Gettysburg, halting General Lee's Second Invasion of the North.

During the second half of the year the regiment, along with the rest of the Army of the Potomac, participated in two other military campaigns across northern Virginia. The first was the Bristoe Campaign, which was a series of unsuccessful minor battles to defeat the Army of Northern Virginia. The 94th regiment was involved in all four battles, Auburn from October 13-14; Bristoe Station October 14; Buckland Races October 19; and Across the Rappahannock on November 7, 1863.

The second campaign was the Mine Run Campaign. It consisted of one prolonged battle that lasted from November 27 to December 2, 1863. The battle was another attempt to break the Army of Northern Virginia, but failed. The Union forces were bogged down because of the Rapidan River and swamps along the river. The battle was mostly an exchange of artillary fire and eventually the Union forces would retire to winter quarters at Brandy Station, VA.

The monument for the 94th NY Regiment at Gettysburg, PA was dedicated by the state in 1888.

The 94th New York was commanded at the Battle of Gettysburg by Colonel Adrian Rowe Root. He was wounded on July 1st, and Major Samuel Mofffet took command. The regiment brought 445 men to the field and lost 12 men killed, 58 wounded and 175 captured or missing.