I am not sure if the Rubicon will offer a 4 speed automatic. The only real specifications I have are at the following Web link http://www.jeep.com/autoshow/news_events/rubicon_design.html - they just mention the automatic as an option.
I still am a little old fashion when it comes to transmissions in a Jeep and would more than likely still go with a manual. The older Wrangler I had was a 5 speed and I had a ball with the manual. I know Jeep doesn't call the dark blue Navy Blue but it is just my generic name for it.
I agree with you that the half doors are much better looking. The top of the half door is exactly aligned with the normal lines of the Wrangler are just perfect. I am really still perplexed by the choice. I have also seen the plastic replacement sliding windows for the half doors. In fact, I just saw a Wrangler with them yesterday. I just don't know if they are for Besttop or some other after market brand. I put an after market top by Besttop on my 1994 Wrangler.
Do the complete soft doors come for the factory soft top on the new Wranglers? On the older Wranglers they would not fit the factory top and you had to buy the entire new top to use them. Also, I agree with you on the dealer options. I basically agree with you that in a good summer in Austin the humidity and temperature would be OK for half or no doors.
What are the new sail cloth tops you mentioned? Also, you mention the toll road. Do you live in the Houston or Dallas area?