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I have a lot of emails to which I apply labels and remove it from the Inbox. However, when a new email in the thread arrives, it again comes to my Inbox (and is also in that label's folder). How do I prevent it from coming it to the inbox? Please note that many a times, there are no specific rules for these (when I do give rules however, I say skip the inbox but otherwise, how to do?)

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I was hoping a filter of "Matches: has:userlabels; Do this: Skip Inbox" would work, but it doesn't. (Labels are actually attached to individual messages, not conversations.) I don't think you can do this natively in Gmail. – Al E. Jun 4 '13 at 19:17

You can use Gmail's Muting feature to automatically have subsequent messages bypass the inbox, but that won't automatically apply the label. For that, you would need to create a filter action based on the subject line.

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