Burnett's question was in reference to a comment Maher made while performing stand-up about former GOP vice presidential candidate Sarah Palin.
Burnett addressed her inclusion in the ad during her show Monday night.
"To be honest, at first I was kind of amused I was included. Then I was annoyed," Burnett said. "I certainly don't agree that Democrats are in a war on women."
She goes on to say accusations that either party is at war with women are "all just politics." Democrats have lobbied a similar charge at Republicans over their move to block an Obama administration rule that requires employers and insurers to provide free access to contraception. Democrats also to objected comments made by conservative commentator Rush Limbaugh, who graphically denounced a Georgetown Law student who testified in favor of the rule before Congress.
"The problem is politicians now are happy to point the finger at the other side ... while implicitly ... or, frankly in some cases explicitly, finding a way for 'their guy' to be let off the hook," Burnett continued, arguing both sides of the political aisle had failed to police hateful language towards women.
Burnett's objection is not the first to come from a broadcaster this election cycle, with NBC News and Tom Brokaw both lodging an objection to Mitt Romney campaign's use of a clip from the 1990s to criticize rival Newt Gingrich over ethics charges.
"I am extremely uncomfortable with the extended use of my personal image in this political ad," Brokaw said in a statement. "I do not want my role as a journalist compromised for political gain by any campaign."
NBC's legal department requested Romney's campaign remove the ad, although his campaign defended the spot as acceptable under the "fair use" exception to U.S. copyright law.