Good find, @Melinda.
Fine Uploader lives within a custom-named namespace so that it does not conflict with other potential global variables, this is the qq
namespace (historically named). What is happening is that each custom build is redeclaring this namespace along with all member objects when you include it in the <script>
tags on your page.
I've opened up an issue on our bug tracker that explains the issue in more technical details, and we're looking to prioritize a fix to the customize page so that in the future no one will have this issue.