What behaviour are you observing?
I updated from 6.3.1 to 6.5.1 without changing the config and now i see these error logs.
Are logs being collected even if you see this error?
Logs are collected as before.
Could you share the labels you are using for hints-based configuration?
For the logstash and filebeat container, we have set the label: co.elastic.logs/disable="true".
After investigating a little bit we have found that there can be some misbehaviours when the disable hint is used. I have opened a PR to address them https://github.com/elastic/beats/pull/9305
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