I've found him in Booth's book:

"Bonner, J. M., Appears on Official Rolls of Paroled Officers as Capt. Crescent La. Regt. Co. A.
Paroled at Meridian, Miss., Monroe, La., June 23rd, 1865."

There is no cross-reference to Booth's listing for Lt. John M. Bonner of the 16th. I'm not sure that I understand Booth's reference to two parole locations. Should it say: "Paroled at Meridian, Miss. June 23rd, 1865, *residence* Monroe, La."? I'm not too familiar with La. geography. Is Monroe in Morehouse Parish? Confederatana Foundation's message shows him being paroled at Monroe.