Xavier Bonilla, who produces cartoons for the El Universal newspaper, said he had been a victim an "abuse of power" following the move by the regulatory body.
The official press watchdog, decried by the opposition as a government censor, gave the cartoonist 72 hours to "correct" his work, according to the ruling.
The order also raised the possibility of a fine equivalent to two percent of the newspaper's sales during the last quarter.
"This is a battle between David and Goliath," Bonilla said.
Bonilla attracted his ire with a cartoon published last year that depicted a heavy-handed police raid on Clever Jimenez, an opposition politician the president has accused of espionage.
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