I can answer a few.
1. Atton's dialogue line about Pazaak, occurs when you are talking to Kreia actually. She has you concentrate, and then you start hearing surface thoughts on all those on your ship. After this, you can talk to Atton and ask why he plays Pazaak in his head.
5. No matter who you chose to send to the Freedon Nad Temple, the Party Members will always say that "They don't want to talk about it". Nothing more is ever revealed, creating a 'story hole'.
6. I think the fuel quest was unresolved. I don't know anyone who was able to complete it.
- dr cloak