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When Homura's Soul gem becomes tainted it fills with swirling colors that Nagisa calls worse than curses. Homura then says shortly after while reality is being recreated that what transformed her wasn't despair but love.

Why did Nagisa think Love is worse than a normal curse?

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Answer: Nagisa never said nor thought love is worse than curses. Both Nagisa and Sayaka couldn't explain why Homura's soul gem had those colors. Homura bore way more negative energy within her then ever seen before. Way more than a curse ever had borne.

Side note: Homura claims that all this negative energy comes from her love for Madoka due to several events:

  • Being unable to save Madoka the way she wanted: by preventing Madoka from becoming a Puella Magi
  • Losing Madoka (again): Madoka vanished from visibility when she became the creator of the new universe, a.k.a. Madokami
  • The desire to bring Madoka back (as a plain human)
  • The idea of being able to meet Madoka(mi) again when Homura's soul gem becomes completely black
  • The selfish act of taking Madoka(mi) for herself and thereby breaking the universe
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In light of the events of Wraith Arc, it's likely that what happened isn't that a new and worse form of corruption manifested ex nihilo but that the wraith born of Madoka and Homura's mutual love, who is integrated into Homura post-Wraith Arc, became a pseudo-witch.

The manga demonstrates that prolonged contact with old universe magic can cause wraiths to evolve into witch-like entities, including a copy of Walpurgisnacht itself. Specifically, the inciting magic was Homura's discarded shield of time manipulation -- which, in Homulilly's labyrinth, Homura had been using in place of the bow of memory manipulation. So, instead of becoming a regular witch that Madoka could freeze in the soul vault, the wraith part of her became a pseudo-witch. But since Madoka was already in the process of soul-conducting, Homura was able to interact with her, and by utilizing her anomalous power she could divide Madoka's divine powers apart from her physical body. Thus, Madoka gets to live a human life alongside her loved ones, the Law of Cycles gets to prevent witches, and everybody wins. Except Homura, who continues to be sad, and Kyubey, who gets mercilessly dunked on.

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