I was navigating in the Issues section, added a custom filter, came back to find the Backlog showing 0 issues present, with no pre-set filter ON. Also no issues present in Active Sprints. This is a serious bug! Tried from the Jira app as well, the same scenario over there!
My first guess is that this is not pointing to a bug. Rather I suspect you have edited the board filter impacting the issues shown in the board. When you say you added a custom filter could you explain a bit more about what you did exactly? Also is this a CMP if so could you please share what your board filter looks like?
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