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Comment by cyphar | Hacker News Reader

You can use an nvram command to do it from the main OS.

    nvram boot-args="rootless=0"

EDIT: Actually, it looks like that no longer works. Dammit.

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I believe that toggling a boot-arg only disabled SIP on early developer betas of OS X 10.11. For shipping releases of El Capitan you need to use csrutil from the recovery partition as a parent comment mentioned.

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