From what I understand, Patchouli wants to train the femanon as a killer for her own motives but she realized that it was wrong and give her a better education instead, the last panel is the knife which intended to be used by femanon and now it's totally left behind. Good end.
1. Must be some solid red beans. 2. It's says "Oshiruko"(thanks to my little knowledge in hiragana), tried to search it on google and it's a red bean soup.