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This is a list of the Los Premios MTV Latinoamérica winners and nominees for Best Alternative Artist.
| Year | Winner | Other nominees |
|---|---|---|
| 2002 | Manu Chao |
|
| 2003 | Molotov | |
| 2004 | Café Tacuba | |
| 2005 | Miranda! | |
| 2006 | Panda | |
| 2007 | Panda | |
| 2008 | Café Tacuba | |
| 2009 | Panda |