Afterwards, the regiment transferred to Little Rock, where it built fortifications. Union troops then outflanked the city's defenses, leading the Confederates to abandon the position. In 1864, the regiment moved to Louisiana as a response to the Red River campaign. On April 9, the 11th Missouri Infantry fought at the Battle of Pleasant Hill before returning to Arkansas. On April 30, the unit was part of a Confederate attack at the Battle of Jenkins' Ferry, although the charge was repulsed despite initial success. The unit was not heavily engaged after Jenkins' Ferry, and the men of the regiment were paroled on June 8, 1865.