This is happening because the default format for the logstash module's ingest pipelines is plaintext, not json. I have a couple of questions that might help me determine the easiest way forward to help you load the json pipelines:
Is your logstash module enabled? You can check by running filebeat modules list.
If the answer to (1) is yes, then what does your modules.d/logstash.yml file look like?
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