Police made at least ten arrests and deployed stun grenades after coming under attack with bottles. Violence was concentrated in Prague’s historic Old Town Square where hundreds of England fans gathered ahead of the match.
Authorities allocated 3,800 tickets to England fans, but more may have travelled without tickets.
Further sporadic disorder was reported after the match as England fans left Sinobo Stadium.
Speaking to The Daily Mirror an eyewitness said: “It started when one or two fans threw bottles at the police.
“They landed near the police vans and at first they ignored it.
“But then one bottle hit the meshed window of a police van, and that was the trigger for them to act.
“The England fans then threw three or four bottles, and the cops moved in with batons drawn as they set off the two stun grenades to disperse the crowds.
“Then the men involved were arrested and held down on the ground before they were taken away.”
The worst of the violence took place shortly before kickoff at 7pm local time (8pm BST).
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England fans hung English and British flags representing various different clubs around bars in the Old Town Square.
During the disturbance, Czech police ordered England fans to disperse through a public address system.
They said: “Leave the area. Do not hide your faces. Leave or face police intervention.”
Hooligans accompanying England fans have caused a number of disturbances in recent years.
There was rioting in Porto during the Nation’s Cup in June, with those involved branded an “embarrassment to the team” by the FA.
In March, 2018 Dutch police made 100 arrests after disturbances involving England fans in Amsterdam.
England manager Gareth Southgate also condemned a section of the English support for booing the Dutch national anthem.
However, there was little trouble at the 2018 world cup in Russia, with many hooligans choosing to stay away after the Russian police made clear they wouldn’t tolerate lawbreaking.
Authorities are attempting to crack down on violent and anti-social behaviour accompanying England fans abroad.
However the situation is better than in the 1970s and 80s when hooliganism was so rife it became known as the “English disease”.