So yeah, after almost 2 months to the day, I put it together yesterday. I had a lot of trouble with the tru oil in one specific part of the guitar, where tiny spots would break out again when gently sanding or even when accidentally scraping it lightly with my finger nail. I got around it by filling these spots with super glue and then adding tru oil on top. I think the tru oil didn't like the glue that was used to fix a broken spot in the veneer, but as it was done by the factory, I have no idea what glue that is...
I also noticed that spot "lives" and changes with humidity. Funny, but in the end I decided not to make this particular spot perfectly level to avoid any more break outs. You can see it in the first picture, the reflection highlights the spots. They are mostly concealed by the pickguard anyway.