- Play either The Doom or Lost Impact, with the music turned up, and think about what exactly is occurring. Enjoy yourself!
- All of the endings have Shadow figure out who he is... and there's the Slightly-Hero: Hero Ending. Shadow realizes all the damage he caused, and for the first time, is actually broken up about it. And the title for one of the routes you can take to get to it? Shadow's Second Death. He really sounds like he's contemplating suicide.
Shadow: I'm Shadow...the Hedgehog. A research experiment...gone deadly wrong. I've caused so much destruction...I should never have been created.[Quietly] This is who I am.
- The Narm that is Vector's response due to his goofy voice and clichéd, unhelpful words arguably make it worse.
- To some extent, defeating Sonic in the Pure Dark and Semi-Dark Endings. In hindsight, the fact that you have defeated everyone's beloved blue hedgehog along with Diablon and the fact that you have turned your back on all of the heroes makes this all an unpleasant sight.
Sonic: Shadow...why? Why are you siding with them...?
- At the end, when the President says "Even though we tried to destroy him, he still saved us." It brings to mind Sonic Adventure 2 and how Shadow sacrificed himself to fulfill Maria's wish despite his former Humans Are Bastards attitude. That one line perfectly captured Shadow in that moment. The piano tune over the credits didn't help matters either.
- Also at the end of Shadow, Shadow standing aboard the ARK and looking at a picture of Maria and Professor Gerald, before tossing it behind him and saying "Goodbye forever, Shadow the Hedgehog." Part of the impact may be from the callback to Adventure 2's "Sayonara, Shadow the Hedgehog."
- The music to Lost Impact. Made worse by how it's one of the two flashback levels you go through with Maria Robotnik.
- The music for GUN Fortress, the final level of the pure dark path. It perfectly captures the mood of the level: humanity is all but wiped out and you're storming their last line of defence. Regardless of if you go the "hero" (more like Starscream) or dark ending, the world is doomed.
- Right before you play through The Last Way, Team Sonic, Amy and Rouge are all paralysed. Then Shadow takes off to stop Black Doom, and there's these words:
Rouge: (Desprate tone) Shadow!Sonic: You're our only hope now...
- Shadow killing Dr. Eggman in three of the endings was pretty heartwrenching, especially considering that the game portrays Eggman as a morally-complex character who isn't irredeemably evil like Black Doom is. Seeing such a lovable villain get killed off, non-canon though it was, was a real gut-punch to the Doc's fans.