Watch them in release order and you've watched them out of order. The Bourne Ultimatum secretly overlaps the last act of Supremacy — and The Bourne Legacy happens at the exact same time, one city over. Here's the real sequence.
5 films2 agentsTreadstone → Blackbriar → Outcome
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Two films sit inside the amber band because they happen simultaneously: Ultimatum runs right through the unfinished ending of Supremacy, and Legacy plays out during the very same Manhattan manhunt — just following a different agent, Aaron Cross.
⧉ The Overlap — the same few days
Supremacy’s New York ending isn’t really its ending — it happens after Ultimatum. And while all that unfolds, Operation Outcome is being burned down across town.