Boniadi, the magazine writes, was then reportedly sent to a Scientology center where she broke down and revealed her relationship with Cruise to a friend, which supposedly violated her confidentially agreement. As punishment, Vanity Fair says her chores included "scrubbing toilets with a toothbrush, cleaning tiles with acid and digging ditches in the middle of the night."
The Church of Scientology, however, denied this to the magazine, saying, "The Church does not punish people, especially in that way."
Following the reported failed relationship, Boniadi, 32, went on to appear in the soap opera "General Hospital" and had a role in the 2010 blockbuster film, "Iron Man." Boniadi is now a spokesperson for Amnesty International and no longer involved with Scientology, according to the magazine.
Holmes filed for divorce from Cruise earlier this year after six years of marriage. The couple has a 6-year-old daughter named Suri. Holmes did not become a Scientologist until she started dating Cruise. A rep for Holmes told ABC News that she has no comment on the story and it was done without Holmes' participation even though her face is on the cover of the issue.