Rutherford County faced economic problems similar to other regions of the South. Farmlands had served as battlefields and many splendid mansions were torched and only the chard walls remained. Miraculously the Courthouse remained intact. Alterations and minor repairs were approved by the Quarterly Court in 1867. It is not known if the Courthouse was in need of general repair, if it had been damaged during the war. Minor repairs and improvements continue to be made until the turn of the century.

In 1869, an iron fence was placed around the Courtyard. Damage had occurred to the fence due to horses being tied to it. In 1872, hitching posts were built around the Square to eliminate this problem. Attention continued to be made to the aesthetic beauty of the Courthouse interior. In 1874, two chandeliers were purchased for the courtroom and hall for a total of one hundred sixty-seven dollars. The turn of the century brought minor repairs to the Courthouse. A cistern was filled and the roof was repainted.

In 1908, alterations were made to adjust for offices. The beautiful columns and porches were unmolested while construction of the third floor was added.

The Courthouse experienced another narrow escape March 20, 1913. A tornado struck Murfreesboro. The debris from the tornado only damaged the tip railing around the clock. It was highly debatable whether or not the tornado actually hit the Courthouse.