Problem saving new Rapid Weaver site

I have been using RW for about a year and find it great. I am using 6.3.5 but when I save a new or updated site to my hard drive, the ‘stacks’ coloured logo doesn’t now show. I can re-open the file from my HD and continue working and saving, but logo doesn’t show. When I export the site for uploading to my Provider, via Transmit, all seems fine. When I then log on to the website using the correct URL, I just get the plain theme back-drop, with no pages,text or pictures!!!
Any suggestions would be appreciated