After upgrading ACF to Pro 5.0.2 (WP 3.9.1, Tabify 0.8.1):
In Tabify configuration screen, all the ACF field groups are shown on every cpt no matter their rules. Despite that, everything seems ok at the first edit.php page load. The problem araise again switching tabs, since Tabify try to force the display of those field groups even if they do not belong to the current post type.
I just posted the same question in many different places, I'll keep updating them all with any useful information that may come up.