I found the links to a couple theories:

I like this first one and not just because I can follow it easier.

http://community.livejournal.com/lost_tv/1631599.html?thread=35257199

On this one you need to scroll down a little and click the "read theory" button for it to show up

http://theoriesonlost.blogspot.com/2007/05/great-gedanken-experiment-tale-of-time.html

Ben is no joke!!!!!!

I can't believe he let them do that to his daughter, or was she his daughter?

WTF---?

I don't know what to say...something's got to give here..

That shocked the hell out of me.

Camp 1

So Ben and Desmond got off on a boat--

We also see how he met up with Sayid--and why he agreed to help him

I can't believe they killed Ben's Daughter!!!! OMG!!!

The Smoke Monster is back! (WTF were they standing there for?) Did Ben call it out?

The search for Jacob is on

Charles Widmore and Ben had quite the conversation---was Penelope the one that Sayid was involved with and killed?

Camp 2

Doc washed up on shore

Jack's popping pills

Not too much of a revelation in that camp.

Geez. What an episode!

Whew! That was a hell of a ride.

Sawyer better make it off that island. He's one tough ass.

Now, what's this rumor 'bout Clair not making it off the island? I remember seeing Kate with the baby in a flash forward. Kind of makes sense when you see Sawyer leaving with both of them heading back to Camp 2.

And Jack's appendix? Does that explain why he's popping pills when they go home? None of this will be answered. Just speculated.

Thinking out loud folks. Leave me be with my dilution.

No need to confuse me any further by trying to explain it to me, please. I know someone will try. But don't. By the time you think you've got it---you don't.

Uh, Riggs?

Great questions---rest assured I have absolutely no answers!

And yer rowt! The theory will change. I am perfectly content with remaining just as insane as I was we I first began watching. I have given up on figuring it out.

I agree with all of you about what a ride this eposide was.  I was also totally shocked when they did actually kill Ben's daughter.  The Oceanic 6 does not include Claire but it does include Aaron, so Hugo gets Aaron "off", but is it really "off".  And is that really the doctor that was washed on shore?  It's just Charlotte's and the other guy's word who that is.  And the other guy's (whose name I can't think of) lied about the morse code message, so you know he doesn't tell the truth.  I so want Sawyer to survive, but he's not part of the 6, but does that really mean anything.  Desmond and Ben aren't part of them either, but we know that Ben gets of the island.  I think there is a "beam me up Scotty" machine on the island that Ben uses to get off the island.  That's why he looked a little surprised that he was in the desert and when he asked the desk clerk the day he looked very smug, like that is what he was expecting.

Like you guys said we won't know the full story for two more years when the show ends, but it's one heck of a ride in the meantime.