First problem with rules if you click on the message to create a quick rule, then you don’t have full access to all the rules. You have to go to the menu up top to select rules and then you have full access to all the options.
Second problem is that they are very complicated to setup and are not intuitive. I can create rules on TB with no issue but yours requires much more work and understanding to use properly.
Final problem is that you don’t offer age functionality. I want to have the system delete certain rules that meat certain criteria after a specified bit of time, TB makes that easy, you don’t even offer it. It is a great way to keep your mailbox clean and, to me, it is a major flaw in an otherwise create product. Even Postbox, which you bought out, offered it.
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Yes, I have the same issue. Postbox gives me an icon and quick way to rune filters/ rules. eM Client needs to give all of us the same ability. I run multiple email address and moving things to folders one by one doesn’t cut it! I also have found that my migrated rules aren’t working. PLEASE Update everything so we have this ability. 
eM Client is looking at Rules updates soon which “you can vote for” and add any comments via the following Sleekplan links below.
A lot of these are due to Postbox user feedback.