The Arsenal star was left out of the team session with the Three Lions keen to manage his workload following an intense start to the Premier League season, most recently facing Manchester United late on Sunday afternoon.
As a result, Saka is partaking in individual sessions as a way to lessen the intensity of his training plan.
Levi Colwill and Callum Wilson also missed England's team sessions with the duo also partaking in individual drills.
Colwill has played every minute of Chelsea's league campaign so far, while Wilson is still in the process of reaching full match fitness.
As a result, Chelsea defender Bashir Humphreys and Tottenham midfielder Alfie Devine have been drafted into senior training to deputise, before returning to the under-21s squad.
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Trent Alexander-Arnold and Jack Grealish have already withdrawn from the England squad due to injury.
Gareth Southgate's squad are preparing for two fixtures during the international break.
The Three Lions face Ukraine in a Euro 2024 qualifier on Saturday before going to Scotland for a friendly on September 12.