- When working on Invader Zim, Nickelodeon wanted the office where it was being made to be decorated with pictures of Invader Zim's characters. Nickelodeon wanted cute characters, but Jhonen decided to put up pictures of Bloaty instead.
- First name is pronounced "Joe-nen"
- Suffers from hypnophobia, which is the extreme fear of falling asleep. As a result, many of his characters are insomniacs and the name of his company is Question Sleep, represented by a Z followed by a question mark, "Z?".
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