Actually it comes up with new owners all the time and then they get used to it and move on.
It never tripped me up from the beginning. It's just your average X-number of X-total progress scale. Overall progress in the book is easy to see, as well as how close I am to the end of a chapter (provided the ebook creator isn't a complete idiot).
If it's mostly text (novels), I know that 5000-7000 is a fairly average sized book and anything over 10000 is approaching doorstop proportions.
I never really paid attention to page numbers with physical books either... just open to the bookmark and continue reading. Isn't that how most people do it?
I guess one arbitrary number is as good as the next as far as I'm concerned.