Naysmith had been suffering from an ankle injury all week.
Scotland boss Berti Vogts said: "He has not been able to train at all with us. But it is not a big problem. We are not playing against the French, we are playing against the Faroes."
Although the exact nature of the injury in unclear, it is thought that Naysmith will be back before Everton's next game, against Southampton on September 11th.