There is a real issue with the depth chart in all of my leagues. Regularly, players disappear from my depth chart. I always put all of my players in the depth chart, and at least always at their own position.
Today, when I checked a few of my leagues, multiple players were missing.
There's something that triggers this, usually an "out" player that is active or signing an oversight when signing a player or accidentally activating too many/deactivating too many players.
That said, I do have in the queue completely disabling human team depth chart reset even if the AI has to activate/deactivate players. It just will take a little bit because the active/deactivation algorithm currently used the depth chart to decide who needs to be activated.