What @petermolnar suggested also redirects your users to the main site if they want to register (I’ve tested this but feel free to make use of it. It’s good practice).
What you need is a registration/login/edit-profile plugin for the front end:
http://www.cozmoslabs.com/1341-wordpress-profile-builder-a-front-end-user-registration-login-and-edit-profile-plugin/
It’s shortcode based so all you have to do is redirect your users to the register page where you have [wppb_register] shortcode. Create register/login/edit-profile pages for each site you need and that’s it.
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