FYI - From what I have seen there is a problem with H5P embeds and activities when you LINK to the original in the Content Bank (alias).
If you store a copy, restore works.
If you store a copy, restore works.
(Though of course linking makes major sense because editing of H5P can only be done in the Content Bank...)
A workaround would be to ALWAYS CLEARLY NAME those H5P activities which are linked to. Then - after restore - you should be able to mend the broken links.
Maybe even now, in the courses you moved, there will be some hints in the embedded links that will tell you out the H5P file's name you can try to re-link . It's unfortunately much worse in the case of activities - here the aliased file disappears completely, and so there's no hint - unless you remember which activity it was, or can check back at the original course location.