Jones was a common Human surname.
On stardate 1312, Captain James T. Kirk accidentally called a yeoman named Smith (another common Human family name) "Yeoman Jones". (TOS: "Where No Man Has Gone Before")
In a trial on stardate 2947, JAG prosecutor Areel Shaw used a hypothetical situation between two characters named "Captain Smith" and "Lieutenant Commander Jones" to illustrate a possible psychological interaction between Kirk and Benjamin Finney, who held each rank, respectively. (TOS: "Court Martial")