His file contains no copy of a parole at the end of war. I would suspect that he was never issued a parole and his Q. M. Department scattered to the wind without being captured by the Yankees.

As to Flags, the Stars and Bars is the name given for the Confederate First National Flag. This was followed by two successive National Flags, the Second and Third. I suspect you are referring to the Confederate Battle Flag.

Do a Goggle search, Flags of the Confederacy. There you will find this hit:

http://www.usflag.org/confederate.stars.and.bars.html

……

J. T. Flanigan, Private, Company K, 16th Regiment Georgia Infantry, enlisted July 25,1861 in Columbia County, Georgia by Capt. Boyd for the war, detailed as Shoemaker at Columbus, Ga. October 17, 1861, recorded as Able Bodied, detailed and employed by Major F. W. Dillard, Q. M. at Columbus, Ga., last recorded as serving as Shoemaker for the period January 1-31, 1865, no further records

M266: Compiled Service Records of Confederate Soldiers Who Served in Organizations from the State of Georgia