Thank you for reaching out and for the kind words. TAPE is designed so you can have all of your projects in a single session, with the saving/loading system in place to provide a backup. It is dangerous to have a file easily loaded simply replace the contents which is why it adds in the way it does, but allows other Collections to be added.
If you need to reset the contents, you can use the GUIDE .txt file that is provided with TAPE, clicking the message that appears will remove any Collections present.
Currently there is no way to rearrange Items in a Collection but it is something we are looking into !