I have had the same problem for a while now (since I bought a new ebookman). I have recently tried again and was able to work out a way to do it.
Firstly make sure you have you ebookman desktop manager installed on your computer and connect you ebookman to it.
Next, click on the WEB and go to Download O/S applications. You will then get a box that says "connecting to franklin.com to retrieve the latest O/S and applications. Click OK and a window wil say connecting to Franklin.
Next you will get a window that says unabale to connect to Franklin.com, again click OK and another window will appear saying "The O/S could not be downloaded directly but will atempt to continue the download using your browser etc" Again click OK.
Next you should be taken to a franklin webpage with a download link specific to your ebookman. The info says it is best to click download and open the file directly from the webpage but I found it best to save the download to an empty floder on my computer. Just make note of where you save it to.
Once the file is downloaded you need to locate it on your computer and right click on the zipped folder (do not extract files beforehand) once you have right clicked a pop up will com up and you select OPEN WITH and then select EBOOKMAN DESKTOP MANAGER. Once you do this a window will come up saying UNPACKING FILES and you click OK. Another window will then come up asking if you want to SYNCHRONISE YOU CONTENT TO YOUR EBOOKMAN. Again click OK and the operating system should transfer across.
I hope this helps and have my fingers crossed that it works for you.