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I did some testing and I couldn't get a largo setup that replicated #399. However, I found another bug that I believe may be the source.
If series are disabled and a user is created, the first time they visit the menu page they will get an option set to hide
add-series
andadd-post-type
on the menu page (because these taxonomies are still registered as 'ghost' taxonomies). If the series are then enabled, they'll be hidden.The simple fix: If the series/post types are not enabled, be explicit and not allow them as a menu item.
See my comment on:
http://stackoverflow.com/a/8363082/620680
We should still keep an eye on this.