This, my friends, is a real shame.
As someone who reads tie-in novels as a guilty pleasure, I never expect much from them. I don't think anyone does. Fans love a movie, a comic, a game and they just want more of the same. Karen Traviss's tenure with Star Wars was one of the rare times that fans actually got more out of a tie-in series, and not just more of the same.
As I've said before on this site, Traviss brought both teeth and heart back to Star Wars. I like the prequels - especially Sith - but there's no denying that it's hard to care about anyone in those movies, save Obi-Wan and Yoda. And Lucas left a lot of half-formed ideas and dangling plot threads left either undeveloped or unresolved. His inability to develop both the flaws in the Jedi Order and the identity (or the lack thereof) of the clones greatly reduced the emotional impact of the prequel trilogy.
Traviss took those lingering threads and ran with them, to great effect. And, man, does she have...