@jokrebel, hi
What is your status-interval set to (how many seconds between status bar 
updates) ?
When you still have a red 3! (or whatever the number) after an upgrade - can 
you press the F5 key a few times to see if the red 3! update goes away ?
The additional check for if the cache file is newer than /var/log/dpkg.log at 
the next status update cycle should cause update_cache() to run again and this 
should be after the update has completed and thus should echo a "0 0" to the 
cache file and the red 3! to go away.

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https://bugs.launchpad.net/bugs/1604750

Title:
  Byobu not clearing update numbers after updates

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