The HTML output that Help studio currently produces is great, very functionally and easy for the end users, however the use of framesets has a number of draw backs.
1. It makes it difficult to bookmark pages or pass links to pages.
2. Google doesn’t seem to like it much, the Google bot seems to have trouble crawling these pages.
3. Its easy to end up with nested menus if you jump between content created with Help Studio and content on the main site.
A resolution to this would be to offer a html generation option that did not make use of frames. Ideally a solution that did not involve loading of the whole menu structure for each page viewed...