Kibana queries time out for some directories

Kibana queries timed out for some directories. Stack Tracking is not working. I know that when I only query on one directory, the query times out.

I have 12 nodes(9 data - 3 master).
kibana 7.4.2
elasticsearch 7.4.2

What do you mean by "directories" exactly, how does that translate into a query?
What is the timeout error you are seeing?

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