I have a File Advanced field for a CPT. I specify mime types "pdf,doc,docx". When I try to create a new custom post and tell it I have one of those files, it sees nothing in the Media Library, even though there are five PDFs. It only allows uploads. Do I have the syntax wrong for specifying mime types? If not, perhaps there is a bug in File Advanced. I can give you a login if that would help.
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