Toolset plugins offer a built-in import/export functionality, which allows you to transfer what you have built from one website to another.
In our documentation pages, you can also find information on how to import content of an entire site into WordPress.
When you ask for help or report issues, make sure to give us some information about the data that you import/export.
Migrate websites from live site to development site.
Solution:
I suggest you try to migrate full site(files and databases) from live website to a new development site(different domain name), and do the development work in the dev site, after all things are done, migrate full site from dev site back to original live website.
This will be able to avoid any files or data missing when you importing/exporting the website, and avoid other conflicts(difference in the shortcodes)