ISIS, which once controlled a self-proclaimed state in large parts of Syria and Iraq, is clinging to an area less than a square mile in the village of Baghouz, in eastern Syria.
Foreign Minister Jean-Yves Le Drian referred to them as "enemies" of the nation who should face justice either in Syria or Iraq.
To this end, President Trump has called on European nations to repatriate and put on trial 800 terrorists now being detained in Syria.
The Kurdish-led SDF reportedly later said trucks have been sent into the jihadists' enclave to evacuate the civilians.
Most of the fighters left in Baghouz are foreigners, the SDF has said, among the thousands drawn by IS leader Abu Bakr al-Baghdadi's promise of a new jihadist utopia straddling the Iraqi-Syrian border and expunging national borders.
"They've got a lot of civilians in there, they hold some Syrian Democratic Force prisoners and they are using them as human shields", Votel said of Islamic State.
Among the civilians who have fled are numerous Europeans, including one well known British teenager who joined ISIS in 2015 and now says she wants to come home.
President Trump on Saturday asked European allies to "take back" about 800 ISIS fighters and put them on trial.
IS fighters "have only two options, either they surrender or they will be killed in battle", he said.
Trump's promise of a victory declaration came after he shocked allies and senior figures in his own administration with a December announcement ordering a full U.S. troop withdrawal from Syria because IS had been "beaten".More news: Why is Honda closing its Swindon factory and did Swindon vote Brexit?
Backed by air strikes by the US -led coalition, the Syrian Democratic Forces have already retaken most of the village.
The general overseeing USA forces in the Middle East flew into Iraq on Sunday for talks with US and Iraqi officials expected to focus on ensuring that Islamic State can not stage a resurgence after USA troops withdraw from neighbouring Syria.
But the prospect of the United States' withdrawal from Syria has forced France to prepare for the return of dozens of French militants held by the Kurds, Interior Minister Christophe Castaner acknowledged in late January.
If they return, "they will all be tried, and incarcerated", he said, after France this month opened the door to bringing back its citizens.
The German Foreign Ministry has said it is unable to provide consular assistance to German detainees in Syria due to the security situation and absence of diplomatic ties with Damascus.
Islamic State lost most of its territory in 2017 in both Iraq and Syria to separate military campaigns by the SDF and the Iraqi and Syrian governments.
"Over the past month, more than one foreign sleeper cell was arrested in multiple areas in Syria", spokesman Bali said.
Nearly eight years into a civil war that has killed more than 360,000 people and displaced millions, Baghouz is the main front in the conflict.
Senior US lawmakers and military officials are pressing America's allies in Europe to commit hundreds of troops to create a buffer zone along Syria's border with Turkey, Washington Post columnist Josh Rogin reported on Friday.