Make sure you're using a supported browser, right now only safari, IE and chrome are supported. I've noticed many things similar to your issue when using Firefox.
As far making databases compatible with webdirect, I don't have a specific resource for you but the main 2 things that come to mind are:
- No support for custom menus
- No "click-through" support (e.g. a button behind a text object will not work in webdirect)