I am on Kibana 5.5.0 using the Visual Builder visualization. Is there a 'scale y-axis to data bounds' in the builder as there is in the line chart visualization? I cannot find it.
Do you have the "Axis Min" or "Axis Max" options set with anything? If you don't, then y-axis scaling to the data bounds should just happen automatically.
The automatic scaling you get in TSVB should have a little bit of padding above the maximum limit of the data.
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