@BeccaPrice - if you are estimating MOBI page counts, you will still get the odd book with very odd counts, nothing has changed in this plugin in that regard. It still uses user_none's APNX logic, which gets completely tripped up by books that use <blockquote> or <div> tags instead of <p> tags. My reasons for not changing that within the plugin were always because it would have meant you would still get the duff count when you sent the book to your Kindle. However now with 0.8.40 released I could revisit it, since a user can direct the Kindle driver to pull the page count from the Count Pages custom column instead of trying to recalculate it. Mobi->Mobi won't change such books, however doing Mobi->ePub and then doing count pages on the ePub should give you a better count (make sure ePub format is set take priority in the Count Pages plugin).
As far as Goodreads is concerned, I'm afraid "get an error message" is not particularly useful
. If you post or PM the log from the Count Pages message window plus the log from the Jobs window and then I might have something to work with.