Hopefully you'll be pleased to read this: The missing fonts problem has been fixed since July of 2008. It is a joint Microsoft and Adobe fix, and the issue was not in any way associated directly with FrameMaker, it was the printer driver and it affected many other apps, both Adobe and non-Adobe. Here are the references:
Also, if you would like useful response on your other issues, I'd suggest posting individual questions on the General Discussion forum rather than this thread becoming a jumbled mix of replies -- it's difficult for forum members to follow more than one issue in a thread, it gets confusing for everybody.
Lastly, if you're posting about FM9 issues, please post the specifc version you're using, the "pxxx" numbers from Help > About.
FrameMaker works quite well with Acrobat Pro 9 in terms of production of PDF.
Just make sure that you have one and only one version of Acrobat and/or Distiller installed at one time!
I have another long-standing bug to add to the list. When you use "Find", the found text is supposed to be highlighted. But FM doesn't always highlight the right text. I have a large document (500 pages) that includes a lot of conditional text, including tables whose anchors are tagged and tables with rows that are tagged with conditional text. When I do a "Find" with the conditional text set to "show all", hitting "Find" repeatedly to search for the same text will cause FM7 to highlight the wrong portion of the window, often whole pages away from the found text. I was disappointed to find the same behavior with FM9.
How come no one has mentioned the longtime inability of FrameMaker to refresh the screen and leave non-existent objects on the screen to mess with your mind? Sometimes even Refresh will not get rid of them! you have to flip the page or change the zoom to see that what you deleted is not there and to see that what is missing on the display is actually there.