When using the commands >mute, >tempmute or >unmute the bot has to asign or take away the mute role from the member.
In order to do that you will need to create a mute role like this: (these are the recommended permissions for someone who is muted)
You might still have to edit some channels so try it out with a test-person.
Then you can get the roleId by using >roles or >role [role]
Then set the mute role with >setMuteRole [role]
If you have done that the mute commands should work without problem
Notice! Deleting the muterole or creating a new one may have unwanted effects