"Please stop watching it. Please stop filling your head with filth, please," Jones said in an online video that went viral.
The 19-year-old is not recanting the comments, but he did issue an apology to his cast and crew, Warner Bros. and CBS, saying he never intended to disrespect them.
"I apologize if my remarks reflect me showing indifference to and disrespect of my colleagues and a lack of appreciation of the extraordinary opportunity of which I have been blessed," Jones said Tuesday.
Jones is the "half" in "Two and a Half Men," the hit sitcom that has made him a star and the highest paid child actor on television with $350,000 per episode.
In an interview posted online by the Forerunner Chronicles on Monday, Jones talked about his new religious awakening. He admitted he no longer wants to be on the show and he suggested the sitcom, which is filled with sexual innuendo, may be inflicting serious damage on its audience.
"People say, 'It's just entertainment.' Do some research on the effects of television and your brain, and I promise you you'll have a decision to make when it comes to television and especially with what you watch on the television. It's bad news," he said.
Warner Bros. has not commented on Jones' so-called video meltdown, but it's not the first time this comedy has had to deal with drama on set.
Charlie Sheen's series of bizarre tirades last year and verbal attacks on show executives cost him his job. Matt Belloni with the Hollywood Reporter says the now No. 3 sitcom was able to survive without Sheen, and the same would happen if Jones left the show.
"Once they killed off Charlie Sheen, they resurrected him but he was played by Kathy Bates, so there's a lot of creative things they could do to still kind of maintain the name without having him on the show," said Belloni.
Sheen weighed in on Jones' remarks, saying in a statement to People magazine, "With Angus' Hale-Bopp-like meltdown, it is radically clear to me that the show is cursed."
Jones' character, Jake, will not appear in the next two episodes of "Two and a Half Men," but the shows were written before the controversy. He isn't due back on the set until after the holidays.