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Your 3rd theory is actually spot on — it's an ongoing platform-side issue.

GitHub has an active incident thread tracking this exact problem:
Discussion #203416: Profile rendering issues affecting GitHub profiles:

"We've received multiple reports about profile pages rendering differently than expected, including... contribution graphs not accurately reflecting commits."

And earlier today, GitHub posted an operational incident on githubstatus.com (Incident nms1dpzmh9d9) noting background delivery and ingestion delays across platform events.

GitHub does not penalize or throttle commits for being 1–2 minutes apart, nor does it drop seconds from timestamps. When the contribution ingestion qu…

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