"I am Malala" will not be included in the schools' curriculum, nor will it be stocked in school libraries, Mirza Kashif, president of All Pakistan Private Schools Federation, was quoted as saying by The Independent.
The federation represents more than 152,000 institutions across the country.
"The federation thought we should review the book, and having reviewed it, we came to the decision that the book was not suitable for our children, particularly not our students," Mirza Kashif said. "In this book, are many comments that are contrary to our ideology."
Pakistan's many elite schools are members of the federation. The government has no plan to put Malala's book on curriculum of state schools, although it is not banned.
In the book, Malala talks of her life in Swat Valley where her father ran a private school when it was under Taliban rule, of writing an anonymous blog for the BBC, and of her campaign for girls' education.
Following its release last month, the Taliban threatened to attack stores that stocked the book.
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