What about the books between the Jedi Academy trilogy and the NJO? Other than Children of the Jedi, which should I read and which should I avoid?
I, Jedi is a good companion piece to both The Jedi Academy Trilogy and the X-Wing series. It focuses on Corran Horn.
Avoid the whole Callista Trilogy:
Children of the Jedi,
Darksaber (my recollection of this one actually is that it was okay, so you could read it but the Callista thing may be a bit confusing without COTJ. I even had a copy signed by KJA once upon a time); and
Planet of Twilight.
Avoid
The Crystal Star The Black Fleet Crisis Trilogy, and
New Rebellion.
Read The Corellian Trilogy (
Ambush at Corellia;
Assault at Selonia;
Showdown at Centerpoint). I don't recall them being great books but they weren't bad either, and they are important for the galactic landscape post-NJO.
Read The Hand of Thrawn Duology (
Specter of the Past and
Vision of the Future), particularly if you've read The Heir to the Empire Trilogy.
Can't comment on
Survivor's Quest because I haven't read it.
The first six books in the young adult series Young Jedi Knights are worth reading. Since they're YA, they likely won't "wow" you but I recall them being fairly good. More importantly, they focus on the Jedi of Jacen and Jaina's generation, those who will be stepping to the front of events in The New Jedi Order. I have no personal experience with the two arcs from the following books in that series. Likewise, I have no experience with the Junior Jedi Knights series focusing on Anakin Solo's time at the Jedi Praxeum.