off the top of my head
The big one is obviuosly
"Anakin is meant to DESTROY the sith and bring balance to the force"
then we got all of Boba Fett and Jango Fetts back stories
The Entire bounty hunter triology is non canon due to the events during the Clone Wars
The Katana Fleet doesn't exist
Luuke Skywalker doesn't exist
Cloning as described in Thrawn Triology doesn't exist
The Nohgris meeting with Darth Vader never happens
again just off the top of my head.
Refer to the other thread where you listed those things. Remember TFU and how you said it was G-Canon? Prepare to eat those words.