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The site consists of the 128MW Bocamina I unit, which came online in 1970, and the 370MW Bocamina II facility, which began operating in 2012.
In a statement, SMA cited seven violations.
These included carrying out activities without the necessary environmental permits; exceeding carbon emission limits in January 2013 at Bocamina I; lack of a desulfurization system at Bocamina I; structural deficiencies at the complex and failure to properly manage the intake of natural water resources for cooling processes at Bocamina II.
A 2013 inspection of Bocamina II led to the sanctions, SMA said.
Separately, an appeals court in the nearby city of Concepción ordered the halt of operations at Bocamina II in December 2013, pending the resolution of a case filed by local residents and fishermen against the project.
The court upheld a claim filed in May of this year, ordering the company to adopt several measures to prevent additional environmental damage. Bocamina II has remained inactive since the December ruling.
In June, Endesa awarded a US$14mn contract to Spanish firm Inerco to install an emissions reduction system at Bocamina I.