Submailbox looses parent filters

“All Messages” itself does not show “Deleted Messages” (or “Junk”). Maybe one of your mailboxes for deleted messages is not correctly assigned the “Deleted Messages” mailbox type (see the Mailbox menu)?

No, the smartmailbox itself works correctly, showing no deleted messages, only it's automatic submailboxes show them.

Ok, you can send me the following file and I'll see if I'm seeing something similar:

~/Library/Application Support/MailMate/Mailboxes.plist

Use “Help ▸ Send Feedback” if you like.

Here is the list setup from that file, I hope that is enough:

     {   filter = "(list-id.identifier ~[c] 'xxxxx' or x-trac-project ~[c] 'xxxxx')";
            name = "Lists";
            parentUUID = "imap://XXXX@XXXX/INBOX/Projects/XXXXX";
            partitioningHeader = "subject.blob";
            set = {
                operator = "Any";
                subSets = (
                    {   operator = "All";
                        subSets = ( "ALL_MESSAGES" );
                    },
                    {   operator = "None";
                        subSets = ( "TRASH" );
                    },
                );
            };
            showSingleChild = :true;
            uuid = "XXXXXXXX-XXXX-XXXX-XXXX-XXXXXXXXXXXX";
        },

The "filter" part seems to work fine in the submailboxes, only the "set" part seems to fail.