Root directory for add-on domain?

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http://forums.cpanel.net – When creating an addon domain, cpanel defaults to /public_html/addon.com for the root directory for the addon domain. This results in the root directory being /home/acct/public_html/addon.com. What are the pros and cons of using /addon.com as the root directory instead of /public_html/addon.com? (for a normal shared hosting account, not a reseller account) This would make the root directory for the addon domain be /home/acct/addon.com instead of /home/acct/public_html/addon.com. This seems to me to give better separation between the primary and addon domains, but I don't understand if (HowTos)