We have lots of best practices for Desktop/Authoring but not on how to set up Server. Like naming convention suggestions, security suggestions, etc. How do you best structure a server installation.
Best Practices document for FME Server
FME Form
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Here is a thread related to architecture. It contains a guide of sorts:
https://knowledge.safe.com/questions/30697/fme-server-architecturebest-practices.html
We have recently published FME Server Best Practices Guide for IT Ops and Server Admins.
Please get in touch if this does not meet your needs, or if you have any additional feedback.