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Re:Stories that Hacker News removes from the front page by Mithaldu on Monday March 13, 2017 @09:01AM (#13857389)
Those are marked first "flagged" as a warning, and then "dead" when the user flags reach a high enough level.

This article however is about stories that disappear without receiving either.

Re:Stories that Hacker News removes from the front page by dang on Monday March 13, 2017 @11:00AM (#13858327)
As others have pointed out, the [flagged] annotation means heavily flagged. A story can be downweighted off the front page by user flags long before [flagged] shows up. Indeed that's what happened to the submission the OP is complaining about. Moderators never saw it.
Re:Stories that Hacker News removes from the front page by DanBC on Monday March 13, 2017 @09:02AM (#13857395)
When does the flag label appear though?

Here's an example of a submission that does not include the [flagged] label, but which has a moderator saying it got flagged, and that the flags are the reason it's not on the front page. https://news.ycombinator.com/item?id=13741276

Re:Stories that Hacker News removes from the front page by onewaystreet on Monday March 13, 2017 @09:25AM (#13857566)
Just a few flags from high karma accounts can knock a submission off the front page if it isn't getting enough counter up-votes. It wont be marked as flagged.
Re:Stories that Hacker News removes from the front page by douche on Monday March 13, 2017 @09:06AM (#13857426)
Flags seem to apply downward pressure before they build enough to get the "flagged" label.
Re:Stories that Hacker News removes from the front page by pvg on Monday March 13, 2017 @09:30AM (#13857607)
Flags downrank a post, a post can drop off the front page well before 'flagged' shows up.