The 1939 New Mexico A&M Aggies football team was an American football team that represented New Mexico College of Agriculture and Mechanical Arts (now known as New Mexico State University) as a member of the Border Conference during the 1939 college football season. In its eleventh and final year under head coach Jerry Hines, the team compiled a 3–6 record (1–4 against conference opponents), finished sixth in the conference, and was outscored by a total of 141 to 92.
New Mexico A&M was ranked at No. 239 (out of 609 teams) in the final Litkenhous Ratings for 1939.
The team played its home games at Quesenberry Field in Las Cruces, New Mexico.