I believe I've communicated this to you through our support system but I figured I'd update this thread in case other members experiencing the same behavior come across it looking for answers. We appreciate you bringing these issue to our attention.
The issue that is causing the "Final Value Fees" field not to populate automatically for certain items is expected to be resolved as part of our site update that is tentatively scheduled for 12/16/08.
Also, the issue that is causing the "Listing Fees" field not to populate automtically for certain items is expected to be resolved with our next site update after that one, which will take place some time in mid/late January.
If you have any additional questions or concerns, please feel free to contact our customer support team using the web form on the following page of our site: http://www.auctiva.com/help/requesthelp.aspx