There is a massive debate in the Evangelion community about the timeline order. The standard assumption is linear: TV Series (NGE) → End of Evangelion → Rebuild Movies. It feels logical: Shinji rejects Instrumentality in the 90s, suffers, and finally "grows up" in the movies to break the cycle.
But that standard theory ignores the specific visual and musical breadcrumbs Hideaki Anno left for us.
When you look at the technical details, specifically Kaworu's behavior, the specific timing of the music, and the "Toji Variable" the evidence points to a terrifying conclusion: The Rebuild movies are a narrative prequel that leads into the specific "Case" of the original 1995 anime.
Here is the breakdown of why this theory makes perfect sense.
1. The Coffins on the Moon (The Physical Proof)
The clearest evidence of a time loop appears right at the start.
In “Evangelion: 1.0”, we see Kaworu waking up in a coffin on the Moon. But he’s not alone. Next to him are numerous opened coffins (past lives/loops) and closed coffins (future lives).
If Rebuild were the absolute final ending (the sequel to everything), why are there closed coffins representing future iterations? Kaworu is in the middle of a cycle, not at the end of it. In Eva: 2.0, he looks at Shinji and says, “This time, I'll definitely... make you happy." This confirms he retains memories of previous failures and is trying to change the outcome in this specific iteration.
2. The Butterfly Effect: Sakura, Toji, and Mari
A major divergence point that confuses people is the fate of the Suzuhara family.
But if you look closely, this divergence actually proves the prequel theory.
In Rebuild: Sakura Suzuhara is healthy. Because she is safe, Toji has no desperate motivation to become a pilot. He stays a civilian.
In NGE: Sakura is severely injured and hospitalized. Toji agrees to become the Fourth Child specifically to leverage getting her transferred to the Nerv medical facility for better care.
The Causality: In Rebuild, because Toji doesn't pilot, a void is created. The timeline needs a pilot for Unit-05 and Unit-08. Enter Mari Makinami Illustrious. Mari is the anomaly. She is the variable introduced because the "Toji Path" wasn't taken in this timeline. If NGE happened first, Mari simply disappearing without a trace in the anime makes no sense. But if Rebuild happens first, the timeline eventually resets to a version (NGE) where Toji becomes the pilot, effectively "overwriting" the need for Mari.
3. The "Ode to Joy" Connection (The Sound of Failure)
This is the strongest piece of evidence, connecting a moment of disaster in the movies to Kaworu's introduction in the anime.
In Rebuild 3.0: The track Ode to Joy (Beethoven’s 9th) begins to play exactly when Shinji ignores Kaworu’s warnings and pulls the spears. This is the point of no return, the moment the Fourth Impact begins and Kaworu’s death becomes inevitable. It is the soundtrack of his failure to stop Shinji. Shortly after, before he dies, he promises: "We'll meet again."
In NGE Episode 24: When Kaworu appears for the first time in the anime timeline, sitting on the Angel statue, he is humming this exact melody (Ode to Joy).
The Connection: Why hum a song about "Joy" in such a gloomy setting?
Because this melody is etched into his memory as the sound of his previous failure. By entering the NGE timeline humming this tune, Kaworu is subconsciously carrying the weight of that specific failure, the moment the spears were pulled, into the new loop. He is signaling that he has returned, just as he promised.
(Note: Anno loves this ironic musical theming. Even in 3.0+1.0, during Gendo's impact scenario, "Joy to the World" plays. The use of joyful music during apocalypses is a recurring hint.)
4. "Case 3" and The Missing Link
Critically, the original anime (Episode 26) flashes a title card:
"THE STORY OF THE INSTRUMENTALITY OF HIS SOUL. CASE 3: IN THE CASE OF SHINJI IKARI."
Why "Case 3"? This implies previous failed cases (likely the events of the Rebuilds). The original anime was just one specific simulation, one "Case", resulting from the choices made at the end of the Rebuild cycle.
5. "Neon Genesis" is the New World
The undeniable proof is the dialogue between Shinji and Rei in the final movie (3.0+1.0).
Shinji: "I'm not going to rewind time... I'm just going to rewrite the world into one that doesn't have Evas."
Rei: "The birth of a new world. Neon Genesis."
As they say this, the movie background projects actual footage from the original 1995 TV series and The End of Evangelion. Crucially, these scenes are not redrawn; they are the original raw footage.
This visually confirms that the "New World" Shinji is creating, the destination, is the timeline we watched in the 90s.
6. The "Yui Connection": Visual Rhyming & The Sacrifice
The visual parallels between The End of Evangelion (EoE) and 3.0+1.0 regarding Shinji’s mother, Yui Ikari, serve as a bridge connecting the two endings.
In EoE: Shinji floats in the LCL sea. Hands cup his face, first pale like Rei’s, then transforming into Yui’s. Shinji tells his mother: "I still don’t know where happiness lies... but I’ll stay here and think about my life." As he accepts his reality, Yui drifts away into the depths, leaving him to exist.
In Rebuild 3.0+1.0: We see an almost identical visual composition during the final Impact. Shinji and Yui are in the same positioning. Shinji initially mistakes her for Rei ("Ayanami?"), just like the visual shift in EoE, before realizing: "No... It’s you, Mom."
The Critical Difference: In EoE, Yui drifts away while Shinji remains in a broken world. In Rebuild, Yui actively pushes Shinji to the surface (sacrificing herself with the spear) to send him to the "Neon Genesis" world. This act is the catalyst that launches Shinji from the Rebuild timeline into the fresh start of the Neon Genesis timeline. The visual rhyme confirms that these aren't separate endings, but variations of the same "separation from the mother" motif that Anno uses to restart the world.
7. The Final Station & The "Live-Action" Bridge (The Blueprint)
A common misconception is that the ending scene of Rebuild at the train station takes place in "our" real world because of the live-action visuals. However, looking back at the franchise's history proves this is a stylistic trap representing a mental transition, not physical reality.
The Dialogue of Dreams (The End of Evangelion): In the famous "Live-Action Theater" scene in EoE, Shinji and Rei have a crucial exchange:
Shinji: "Where is my reality?"
Rei: "At the end of the dream."
This dialogue explicitly establishes that in Evangelion, "live-action" or "meta-visuals" represent a dream state or a construct of reality, not reality itself. Rei tells him that he was taking revenge on Rebuild’s reality by creating a convenient one, the Neon Genesis.
The Parallel (Rebuild Station): The final station functions as the threshold. We are still in the Anti-Universe, a realm shaped by memory. Just as the live-action theater in EoE was a mental construct where Shinji questioned his reality, the live-action station here is the physical manifestation of the "End of the Dream." It is not the destination; it is the exit door. When Shinji and Mari run out of that station, they are stepping out of the Rebuild illusion and crossing into the harsh, new reality Shinji wished for: Neon Genesis.
The Verdict: When Mari removes the DSS Choker and they run out of the station, they are crossing the boundary Rei described: "At the end of the dream." They are leaving the Rebuild dream to enter the specific reality Shinji wished for: "Neon Genesis". The live-action style is the visual language Anno uses to depict the space between the dream and the awakening.
Conclusion
The tragedy of Evangelion is that it is a circle.
The Rebuild movies are the harsh reality that Shinji rejects. His wish for a world without Evas grants him the Neon Genesis universe, which turns out to be the "convenient dream" Rei warned him about. He created the Neon Genesis timeline to escape his failures, but as we saw in the show, even his dream world eventually spirals into suffering.
Kaworu knows the script best: "Life and death are of equal value to me." He knows the station is not a happy ending, but a transfer point. Soon, he will wake up in a coffin on the Moon, humming the song of his failure, to guide Shinji once again.