For anyone who want to achieve the same thing :
add_filter( ot_settings_id() . '_args', 'my_ot_setting');
function my_ot_setting($custom_settings){
//do some work with the settings and the sections, ie append your settings.
return $custom_settings;
}
This works if the parent theme applies this filter before saving the options like the example here : https://github.com/valendesigns/option-tree-theme/blob/master/inc/theme-options.php#L833
Otherwise you have to do it yourself like the example above.