I think this is the intended behavior, not a bug. The categories aim to identify files without a /machine-readable/ source. If the file has the appropriate {{information}} (or similar) template, then the source is machine-readable, regardless of whether or not it's actually present. The presence of a source and its machine-readability are different matters.

This is a problem with the template, as it does output machine-readable "source information", except it's not real information but a warning text. The [[c:COM:MRD]] markup should not be output when the text is autogenerated. (Compare with the permission field which does have such logic.)

Same for categorization as lacking author information.