well ......i actually like it, though i think the game would have benefited from a less "realistic" feel to the humans in the sonic world, afterall i doubt they're humans like how we are since alot of them, namely Eggman's family line, and Elise's as well, seem to have the ability to manipulate the chaos emerald's energies.
i mean it could be argued that just about anyone should be able to do it since they respond most to a person's thoughts and desires, but let's look at the track record of the emerald's uses in game canon, i don't count toon canon since the only time the chaos emeralds were mentioned it was in Sonic Underground, and they were mashed into a single green SIMs gem.
Anyway; track record wise with these gems is that the echidna clans are known wielders of the chaos energy in order to protect the floating Island. then with Sonic he's been able to manipulate their power to get a jump in energy in order to defeat teh worst of the worst with eggman's mechas, then there's him turning into Super Sonic. Then there's eggman himself who can manipulate it's energy for his experiments when he first started out as Dr. Kintobor. then he switched to animals since they don't risk overloading and blowing up his machines. ((I'm over-simplifying of course, cuz i don't want to bore you with a history you probably already know about))
And FINALLY we come to Elise's father and Elise herself; they don't show him directly using the chaos emeralds but since he had them we have to assume he manipulated their power to try to control Iblis and Mephiles in trying to use their energy to control time and i guess try bringing Elise's mother back from the dead since it's clear Iblis and Mephiles are both creatures without temporal (that's time travel) restrictions.
Anyway, so yeah I'm probably one of the small handfuls of peeps that actually legitimately likes Sonic '06, I do see all the same flaws in the game, i'm not saying there's nothing wrong with it as far as Programming glitches and story as well as design goes, i do find that very wrong. But i like the story and the plot, it's got a good strong idea going as far as a Sonic adventure story goes ((not to worry, i don't like the Elise kissing sonic thing, that we ALL could have done without)) still though, i like the game and i'm not ashamed to say it