Oh I got it. The boss fight wasn't triggered the first time I was there. I think I know why but I don't want to leave any spoilers. I look forward to seeing whatever you do next.
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Can't find the secret area. I did manage to get myself stuck outside of the map area. If you go to the upper right corner of the upper square green room it is possible to jump up from there off the screen up and to the right and you end up outside the map in a 2 room empty space right above the large green rectangle room.
Playing with an Xbox controller, it is much less ergonimic to have B be the shoot button, instead of X like pretty much every other action platformer. It would be great if there were an option to modify the button actions. Or else change to the standard A-jump X-shoot control scheme.