Radio France Internationale cited an unnamed judicial source as saying Dylan, 72, was questioned and charged last month while he was in Paris to perform.
The Council of Croats in France filed a complaint about remarks the musician made to Rolling Stone magazine last year.
"This country is just too [expletive] up about color.... People at each other's throats just because they are of a different color," Dylan told Rolling Stone, discussing race relations in the United States.
"Blacks know that some whites didn't want to give up slavery, that if they had their way, they would still be under the yoke, and they can't pretend they don't know that," he said. "If you got a slave master or Klan in your blood, blacks can sense that. That stuff lingers to this day. Just like Jews can sense Nazi blood and the Serbs can sense Croatian blood."
French media law bans incitement to "discrimination, hatred or violence with regard to a person or group of people on the grounds of their origin or of their membership or non-membership of an ethnic group, a nation, a race, or a religion," RFI said.
Croatia and Serbia fought a war after the breakup of Yugoslavia that lasted from 1991-95 and killed around 20,000 people.