The settlement was announced Tuesday by Connecticut U.S. Attorney Deirdre Daly and an inspector general of the National Science Foundation. "Science Friday" and Flatow didn't admit any wrongdoing.
Flatow and the show will pay nearly $146,000 to resolve alleged violations of federal law. They also agreed to not participate in federal grant programs for one year.
Flatow says he did nothing wrong and settled because the legal costs were too high.
Authorities say grant money was used inappropriately for "unallowable and unsupported" costs, but didn't elaborate.