Unfortunately, I have been unable to find any reference to the incident in the Confederate records. Officially, the Confederate forces were being drawn down in preparation for a general surrender, and only a few mounted companies were left in the area to safeguard the civilian population. Here's one of the last communications from Governor Flanagin before the surrender, date a few days before the Rough and Ready incident --

Executive Office,
Washington, Ark., May 22, 1865.
Mr. A. H. Garland, Washington Ark.

Sir—The Confederate forces being withdrawn from Arkansas, and the small bodies of troops remaining being virtually disbanded or only retained for preserving the security of persons and property, I feel called upon to request your services, and accordingly empower you to proceed to Little Rock with full authority and discretion to confer with the civil and military authorities in power there with a view to devising and agreeing upon terms best calculated to insure the restoration of peace and good order in society and the due administration of the laws, and to induce all citizens of the State to return to their homes and resume peaceful avocations. I adopt this course under the persuasion that the propriety of it and the purposes indicated will be apparent to all, whatever differences of opinion have heretofore existed among our people.

Your obedient servant,
H. FLANAGIN.