I don't think that the format has changed, I have recipes from an E300 and an E100 series and they look exactly the same.
I would add buttons to allow to upload/download from/to a USB stick, save a recipe with the E1060, save the recipe to USB, unplug the USB stick, copy your current recipes to the same folder on the USB stick, plug the stick back in to the E1060 and you should have full access to them.
E300 recipe fragment:
M14.3;0;BI;1
VW0;Base;ST;4
E1000 recipe fragment:
M27.6;0;BI;1
VW71;Base;ST;4
Don't know why you couldn't upload with FTP, best guess would be that you need to set Passwords. Try Setup/Network/Services/Accounts and tick FTP access and FTP write, add an Account Name and Password. Then Setup/Network/Services and ensure that FTP Server is selected.