In the time you've waited, you could have tested this yourself and arrived at your own answer. /shrug
I would suggest creating an empty copy of your existing library structure (switch library>create new) somewhere else on your hard drive. Enter two dummy books (add book>add empty book) inside just so you can look at sample data - don't get too fancy, but do enter all fields.
Based on
Message #1's included images (#6, 7), it looks like you should be able to test whether it's possible. You would need to use the CSV or Webpage Import, I think. Create a new ID (ID: pg - project gutenberg) as your cross-reference point to link everything together. This should create a series of empty (no formats) ebooks.
Then add books with merging enabled and make sure you use an import filter where you specify metadata from filename, with the template set to the ID field. This should cause calibre to use the filename (which is a pg ID#) against the ID field's ID (which is a pg ID#) and merge formats into the existing metadata from the steps taken in the paragraph above.
You don't have to try the full library - just a dozen books as a sample file. Preferably with some wonky author names, titles, etc to stress the software. Better now then on the real database. Anyway, check the test library for issues and if none are found you can consider doing the same for the real library.
I've never attempted this, or used this plugin, so... YMMV and all that. But theoretically, those are the steps I imagine need to be completed. If one of the
real gurus happens to wander by with alternate directions,
listen to them instead.

You'll know who they are - they answer all the other questions in the Calibre section of MobileRead.