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In developing the OneDrive Linux Client (https://github.com/abraunegg/onedrive), I have found that OneDrive Business exhibits this issue - and more importantly it mostly occurs when saving files to a SharePoint site. Microsoft enriches by modifying and adding data to the files post upload, thus effectively changing the file + hash .. so the file you thought you uploaded is now not the file that exists on OneDrive. There is zero mechanism to disable this 'feature'.
This could be what you are seeing. Details around this is captured here: https://github.com/OneDrive/onedrive-api-docs/issues/935 and Microsoft have no interest in fixing this as this is how SharePoint works.