The correct answer to the meaning of the word habitual in the mentioned excerpt from chapter 2 of Jane Eyre is CUSTOMARY.
Her mood of humiliation, self-doubt and forlorn depression had been established for a long time so it became customary.
Jane is punished by being locked in the Red Room, which is so ominous for her because he uncle died there. In this excerpt, we learn that her mistreatment dampened her anger.