I recently upgraded from Sibelius 5.2.1 to Sibelius 6.2 on my 15"; MacBook Pro (2.2 GHz, 4 gig 667 RAM). Running the latest version of VDL on the old 5.2.5 template (which I've adapted for use with Sib. 6). I do not know if this is a VDL-related problem or not, but I thought I would give it a try here, since I cannot locate a solution in the Sibelius Forums.
When I place a dot after any note (to increase its value by 1/2), the dot does not show up. I have attempted to reinstall the fonts, and after a restart of the software, the dots will appear. However, if I close the file and open a new one and try again - they disappear once more.