That was at first a somewhat 'duh' moment as I had forgotten to change it in the Bakery general settings. After deleting all of the Bakery pages I tried to do this but it came up as 'Rename unsuccessfull', so I removed the whole of Website Baker from the server and deleted all of the database tables and started again from scratch.
To access the Bakery general settings it seems you have to create a Bakery page first, then I tried to change it to 'shop' (without the '' of course) and saved it, it came up as 'Rename unsuccessfull'. I tried putting a folder called 'shop' in the pages directory and it came up 'folder already exists'
How can this be done, it seems that it needs to be changed BEFORE making a page, which does make sense as once a page is made it will be in the 'bakery' folder, but there seems to be no way of accessing the general settings page in Bakery before doing so, am I missing something somewhere??