Separate messages that Mail incorrectly groups into a thread

Mail occassionally will group a few emails into a thread when they're not actually part of a thread (based on similar "subject" lines or other similarities). Is there a way for me to designate specific messages/threads as not supposed to be a part of a thread? Thanks in advance.

I think there must be also other ways
that messages get identified as a thread
Yes, the subject.
because in at least one example I have,
2 of the messages in a thread do not have matching
"in-reply-to" fields nor matching "thread-id" fields
in the long headers.
They don't have to. All that is needed for them to be considered part of the same thread is that they both refer to a message in that thread. The message they refer to doesn't have to be the same for both messages in order for them to be considered part of the same thread. Or am I misunderstanding you here?
The only similarity between the
2 is the subject line, so far as I can tell.
Ah! Yes, the subject is likely also being used to determine that they are part of the same thread, precisely because there is no guarantee that the In-Reply-To header was set correctly in the first place. There is no foolproof method to determine whether two messages are really part of the same thread, so mail clients do what they can (and different mail clients may do it differently). Whatever they do, there will always be messages that are categorized incorrectly.
but it does seem too bad there's no "not a part
of thread" button or menu option.
Well, there are way many things that it's too bad Mail doesn't have... This one is probably not one of the most prominent, but it may be to you if you rely heavily on that feature.

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