Indeed that is the issue. Threads are identified thru metadata in emails, so if you delete wrong duplicate, you disrupt the thread, at least how your mail program sees it.

On 5 Jun 2017, at 15:50, David Ledger wrote:

Do I need to be careful which of the duplicates I delete?
Is there any underlying metadata recording the thread sequence that I could mess up, or is it all just worked out on the fly as the message list is displayed?
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