I think the "What's the skinny" Challenge is bugged

It says in the challenges section that I need to collect all the Survivors Notes and Love Letters with 2 remaining on the last section.
However the collectables log shows 100% for both.

I actually have a hypothesis as to why this has happened. I recently suffered from the bug that resets all your challenges (except Truth) when you start a new character. It’s possible it’s only tracked the collectables I’ve picked up since then, while also keeping the ones I’ve already collected in my logs.
I should be able to fix it by going back through all the Love letter and Survivor notes locations and pick up the ones that re-spawned, but I didn’t collect because I thought I already had them.
However I’m not going to be able to do that with missions (which I’m also short on, despite having done them) because the missions aren’t repeatable.