FYI, the released version will have a new option under the Advanced settings tab to enable CPT support. You will also be able to define which CPT/s to enable support for. These options will affect the options available in the directory home page setting. This help, if not eliminate, the “unexpected” CPT/s from being listed.
Enabling CPT support does more than change which options are displayed in the directory home page drop down, it will also add the necessary rewrite rules in order to properly support CTP/s — I hope.