I'm assuming you mean the registration flow if a user is not using a social network to login/register. If I'm incorrect, let me know.
If clicking the standard Register link is bringing the user to the JomSocial registration flow, it's likely because you have a plugin called JomSocial Redirect in the system group enabled. That's a plugin that comes with JomSocial and will intentionally redirect all users going to the standard Joomla registration page to their registration page.
I hope that helps get you going,
Alex