It's not a clustering config, but rather a recommendation to increase some automatic internal intervals to ensure better run when multiple servers are writing to the same disk. It will work also without those changes.
we've updated to 3.12, we were previously on 3.5
we are deploying as windows service using the jsreport win-install method, per your docs
Yes, we trigger rendering using the web API
We will continue to do some testing and let you know our findings.
I don't have a lot of experience with windows services..
However, have you tried using environment variables like described here https://serverfault.com/a/1103091
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