"Well, what about the goals of the other users - the ones who wrote and distributed the documents?"
What about them? They're users of other software, not Okular. Okular should cater to the needs and wants of its own users. If others want to set these bits in documents they write, their authoring software should likewise allow them to do so.
As I said, it would be reasonable to passively inform the user that these bits are set. Describing the content of a document is, after all, Okular's primary purpose. It is the fact that Okular actively resists its users' obvious intent which I find objectionable. It goes against the entire spirit of Free Software, which is that users should have full control over the software they use.