Most requested feature for GD Custom Posts and Taxonomies Tools plugin is custom meta boxes support. 3.0 that will soon get first Beta version implement meta boxes editor that can be used with custom number of fields and applied to both default and custom post types.
You will be able to define custom fields. Each field can be of a different type (select list, boolean, number, text…), and for select list you can define possible values for the field. Custom field name is the name that will be used to save data into post meta table. Once you have the fields, you can create meta boxes. Each box can have one or more custom fields. And you can attach meta box to one or more post types.
On this image you see list of few meta boxes and opened meta box editor for assigning custom fields to it. You can rearrange list of custom fields in the order you want them to appear in the meta box.
Beta #1 is expected sometime this week. It will have all planned features implemented.