Reimu is the Big Bad Patchouli is the Evil Mad Scientist The mean Alice is The Dragon The other two, kinder Alices are just mooks. Possibly the quirky miniboss squad lead by the mean Alice.
Yeah. This is such a waste. Kill them? Seems like a good enough idea. But is it really thought through? Microwave, a couple of minutes, little creatures exploding from internal pressure as their bodily fluids boil, the thrill of watching them die, and then what? Dirty appliance and depression. Is it really enough?
Why not mess with them first? Make them suffer for real, break their mind and spirit, and then... then give them a sliver of hope, a light in darkness... and then crush them in your hand.