Green Hill Zone takes on a slightly more realistic twist as the opening level in Sonic Chronicles: The Dark Brotherhood, with rocky textures and wild animals amidst the loops and checkered soil. Sonic starts the game traveling through this Zone to see Tails in Central City. The animals of Green Hill have become strangely belligerent, and attack on sight - behaviour later discovered (by the beleaguered Dr. Madden) to have been caused by signal-generating machines hidden around the area; although whether these devices are Eggman's doing, or Shade's, is never revealed.
Sonic and friends later have to search Green Hill Zone for some of Eggman's hidden bases, which can be accessed only after the party recruits flying characters such as Tails and Rouge. At the end of Chapter 3, Eggman himself is finally discovered, operating out of the last of these underground hideouts.
Green Hill Zone is where Amy and Cream can be recruited to join Sonic's party. Cheese is also found here, inside an ancient temple accessible only with Knuckles' climbing ability.