When Yomiko catches Nancy in the hallway outside her room to talk to her, her hair briefly seems to be out of the braids Nancy put it in a few moments ago. The braids return as they're about to leave the submarine.
After Ikkyu first speaks to the world, inside the LLLU control room Mr. Gentlemen talks to Joker over the intercom. In the shot of the computers below the balcony, the staff and chairs are gone. In the next shot they reappear.