The greatest hits disc of book 2 would have included earth song and you are not alone. That would have been a weird decision to have both songs on both HIStory Volumes.
Lets try to come up with a tracklist for book II, I assume he would have ignored the Motown hits:
Dangerous, Human Nature, Dirty Diana, Earth Song, Off the Wall, PYT, Another Part Of Me, Smooth Criminal, Will You Be There, Give In To Me, They Don’t Care About Us, Leave Me Alone, SaySaySay, You Are Not Alone, In The Closet
That’s 15 tracks
Singles not used because of less favorable sales: Girlfriend, Liberian Girl, Stranger In Moscow, Who Is It, Jam, Gone Too Soon, Why, You Can’t Win, Ease On Down The Road and Scream
Though Dangerous would have been part of it which was never a single and thus never a hit but as a live staple it probably proved popular enough. In this case I would also not dismiss working day and night to be included.