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You could always use CloudFlare directly for that... I would presume that their underlying connection to Github is very close and reliable in terms of risk for MITM.

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Even better, you could CNAME your custom domain into the *.github.io domain, which is protected by a wildcard https.

So you traffic between CloudFlare and GitHub will also be secured.

Last I checked, this doesn't actually work with the way *.github.io is set up.

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