pdf.js seems to be ignoring annotations added using Preview.app

[Napoleon-BlownApart]

Attach (recommended) or Link to PDF file here:
https://github.com/Napoleon-BlownApart/Firefox_pdf.js_Problem

Configuration:

• Web browser and its version:
  Nightly 49.0.1 (Last version that does not require signed addons)
• Operating system and its version:
  MacOS 10.13.3
• PDF.js version:
  Standard version shipped with the build mentioned above.
• Is a browser extension:

Steps to reproduce the problem:

1. Open PDF using Firefox (Nightly in my case) and two yellow annotations will be visible in the 2nd column of text on page 1.
2. Open PDF using Safari, or preview, (possibly other readers including Adobe), and four (4) other additional annotations will now be visible, also on the 1st page;
   2a) A "Note" in the top left,
   2b) A comment "This is from Preview" near the top left,
   2c) The first five (5) words of the Abstract will be highlighted in red, and
   2d) The first five (5) words of the Introduction will be highlighed in orange.

What is the expected behavior? (add screenshot)
All annotations are rendered.

What went wrong? (add screenshot)
Some annotations are not visible.

Link to a viewer (if hosted on a site other than mozilla.github.io/pdf.js or as Firefox/Chrome extension):

[Snuffleupagus]

Possibly a duplicate of issue #6811.

[janpe2]

There is a console warning Warning: Indexing all PDF objects.
This is a duplicate of issue #9129, see this comment.

Here is the first page that I have fixed so that there are no xref problems:
issue9552_page1.pdf
All annotations are shown correctly. No problems with QuadPoints.