Gareth Southgate's men meet Croatia in Rijeka on Friday in a rematch of their World Cup semi-final, but a completely different atmosphere awaits.
The hosts are serving a ban for a punishment handed to them in 2015, when a swastika pattern was seen on their pitch during a Euro 2016 qualifier against Italy.
Stones is prepared for the unusual situation, but he insists it will have a bigger impact on the hosts.
"We spoke about it during the week, how to handle it, what we're coming into and that we're coming into this game with none of our fans and especially none of their fans, which will play a bigger part on their behalf," the Manchester City defender told UK newspapers.
"It will be a strange situation. I've not played in an empty stadium since going back to FA Youth Cup days.
"I don't think we will focus on it too much. We trained all week on what to do on the pitch and not to focus on what's off the pitch."
Rijeka pic.twitter.com/Kwviipp1Pz— England (@England) October 11, 2018
Croatia edged England 2-1 after extra time when they met in Moscow three months ago.
"It still plays on your mind, it was such a big occasion for us as players and the nation, the nation was all behind us," Stones added.
"As players, we lived it. It was difficult to take. I don't think anyone will lie about that in the squad."