White House press secretary Karoline Leavitt said more than one million federal workers sent in their list of accomplishments.
The signatories said they will not use their skills to "jeopardize Americans' sensitive data."
The joint resignation letter was addressed to White House chief of staff Susie Wiles and uploaded to a webpage called WetheBuilders.org.
The White House press secretary said she wouldn't "reveal" the administrator's name, which reports indicate is Amy Gleason.
President Donald Trump is facing pushback after federal workers across the country received an email over the weekend asking them to justify their positions by midnight. Several agencies had instructed their employees not to respond to the directive,
The officials wrote in a letter that they "will not lend our expertise to carry out or legitimize DOGE's actions."