Writing on her blog, Molly Norris said her satirical cartoon was "hijacked" and that the campaign was "offensive to Muslims".
Other people set up a page on the social networking site Facebook backing an Everybody Draw Muhammad Day.
It sparked outrage in Pakistan, where a court ordered Facebook to be blocked.
On Thursday the video-sharing website YouTube was also blocked in Pakistan. Reports say more protests against the Facebook campaign are planned for Friday.
'Right to expression'
Molly Norris drew a cartoon in April to protest against the decision by a US television channel to cancel an episode of the popular show South Park because of a contentious depiction of the Prophet Muhammad.
In her cartoon, Ms Norris satirically proposed May 20 as an Everybody Draw Muhammad Day.
The idea inspired a separate Everybody Draw Muhammad Day group on Facebook which rapidly gained in popularity.
The page contains drawings and cartoons of the Prophet Muhammad and characters from other religions, including Hinduism and Christianity. Depictions of the Prophet are forbidden in Islam.
Ms Norris says that she had nothing to do with the page even though her name was posted on it. Some media reports implied that she had set up the Facebook campaign.
"I never started a Facebook page; I never set up any place for people to send drawings to and I never received any drawings," she said on her blog.
She apologised for her role in the controversy and said that the content of the page was "offensive to Muslims who did nothing to endanger our right to expression in the first place".
Pakistan said it blocked the popular video-sharing website YouTube because of its "growing sacrilegious content".
Correspondents say it remains to be seen how successful the new bans will be in Pakistan and whether citizens find a way round them.
YouTube said it was "looking into the matter and working to ensure that the service is restored as soon as possible". The site was briefly blocked in Pakistan in 2008 - ostensibly for carrying material deemed offensive to Muslims.
"Because YouTube is a platform for free expression of all sorts, we take great care when we enforce our policies. Content that violates our guidelines is removed as soon as we become aware of it," said the company.
Facebook said in a statement that it would take action if any content "becomes an attack on anyone, including Muslim people", but that in this case its policies were not violated.
Five people were killed in Pakistan in 2006 during violent demonstrations following publication of Muhammad cartoons in a Danish newspaper.
i had a lot of feelings on draw muhammed day. it seemed to me like a way for assholes to use religion as a weapon against certain religious people, which i'm not okay with. but i'm also not okay with censorship. i guess the issue for me was i get that you can draw muhammed (freedom of speech etc), but why? is it so hard to respect a religion when it isn't causing you any harm?