Is there a preferred approach if we want to get a logo of ours on the home page, either along the top (to the left of the Tool icon), or along the bottom. Clearly an unbranded version would make sense to do this with. We definitely want to make it as maintainable as possible for upwards compatibilty going forward.

Thanks for any comments you might have..

Have you looked at FOP2 White Label?

http://www.fop2.com/buy.php

If you plan to include FOP2 in your customer's PBX and do not want to expose the name of the software or copyright information in the panel itself, this is the option for you. The footer is not displayed and you can change the page title in the html files.