These are what we call the 'YMMV items.' Things that some people find in this work. We call them 'your mileage might vary' because not everyone sees these things in the same way. This starts discussions in the trope lists, a thing we don't want. Please use the discussion page if you'd like to discuss any of these items.
Esoteric Happy Ending: Sure, the island was wiped off the face of the Earth and its inhabitants likely killed in the process, but Joe and Patricia are happy, that's all that matters, right?
Something that was cut was the Chief surviving with his Tobi, having saved his soul (in parallel to Joe saving it). Also, Joe and Patricia are rescued by the Tweedledum, and both Graynamore and his doctor are stranded on what's left of the isle.