Hi, @Gediminas Sadaunykas Welcome to Microsoft Q&A, Thanks for posting your question.
Sorry to hear that you are facing an issue with Azure MySQL DB via the WorkBench.
Can you please provide the version of Workbench you are using, which helps to check from my end.
if you are using MySQL Workbench MySQL client version 8.0.27 then I would suggest you to try with an older version
Regards
Geetha