Holy shit. I realized something. In the Deeper Well area you find strange creatures that talk about vague stuff relating to Sunny's situation and Headspace. But after starting Hikikomori, they all disappear except for the one that says "The sun shined brighter when she was here..."
I was wandering this area and noticed these strange creatures that appear here. They all look different, and examining them gave this message. They weren't here the first time around. It took me until seeing this one to put the dots together. The creatures in Deeper Well were moved her and are now dead. I wonder if it's some kind of punishment. Jeez...