Junior Thabo Khanye (born 18 June 1985) is a South African former footballer who played for Malanti Chiefs, Kaizer Chiefs, Maritzburg United and Platinum Stars.
Khanye formerly played for Kaizer Chiefs and Platinum Stars. He signed for Maritzburg United in August 2008.
Khanye has competed at the Toulon tournament with the South Africa Under-20 side. He played at the 2005 COSAFA Cup, and has also earned one cap for the South African national side.