I know what you mean! The ones that really got to me were the ones that focused on the clones and their struggles, but I was also really broken up about the trouble that befell Ahsoka towards the end. (Finding out that she shows up in Rebels, *sigh* warmed my heart.)

Oh, and Asajj Ventress is like my second favorite SW villain in the whole franchise (movies, books, shows, etc.). She was so badass! :D