As has been standard since the birth of Miss Pauling, it’s not uncommon to see her with a writing tool as well as an object to write on - commonly picked from fandom as a clipboard and a pen. In Miss Pauling’s ED debut, we see that secretarial role within her props as she pulls out a small notebook towards the ending.
On the main menu screen of TF2 for the Gun Mettle update, Miss Pauling’s got a dossier and a sharpie, again a nod to the clipboard and pen. This was done as a reference to the contracts you’ll receive throughout the campaign, which are stylized as dossiers with photos and some notes that you have to decode first.
Absolutely none of what I said is relevant to her props or the Gun Mettle campaign. You’re not getting that exact folder Miss Pauling is holding in-game, ever. Why? What is Miss Pauling’s top secret stuff?
The dossier she’s holding is the same dossier from Meet the Spy.
A closeup of the model from the SFMBeta files for further inspection confirms this.
Miss Pauling’s top secret stuff is Scout’s Mom.