Oh for...
I'm adding another example to item 43.
43) Pixel Hunting not great gameplay.
3) The Temple near Sacred Stone
I went in there a couple times and it dead-ended at a pit where the stairs were gone. I looked around but couldn't see anything I missed. I looked again a second time later. It turns out that I needed to light the braziers. Okay, those are larger than a pixel, but it's not something that we do very often in the game. By this time, I am used to seeing the Braziers only as decorations, not as important items.
I'm not saying this has to be changed, I'm just saying that after all this time of Braziers apparently just being decoration, that's all that I saw them as by that point.
EDIT: But SCREW the stupid 3-button puzzle afterwards. It is not providing me with ANY feedback as to what it is doing.
