How would I compare and remove hacks to core?

Pull down the copy of WordPress from your client’s server to your local.

Download a clean zip of the version of WordPress your client has installed. http://wordpress.org/download/release-archive/

From there, you will need to use a file comparison tool (i.e. Diff on Linux). You can also use GIT to find the difference in folders by creating a GIT repo of the hacked WordPress, then overwrite the files with the new WP and GIT will track them and show you the differences. Github for Mac can make easy work for you.

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