I guess I'm kinda torn on this one... I think that she has chosen Sawyer... Look at all the begging she did to Jack because they were going to kill Sawyer... Then durning all her flashbacks was about the husband & life she kinda wanted then in the end had to run from... Could it be she is just afraid of "falling in love" again... Out of fear of being hurt or hurting someone...

__________________
Please don't give up, Des. Because all we really need to survive is one person who truly loves us. And you have her. I will wait for
you. Always. I love you, Pen

DESMOND: I love you, Penny. I've always loved you. I'm so sorry. I love you!
PENNY: I love you too.
DESMOND: I don't know where I am, but--
PENNY: I'll find you, Des--
DESMOND: --I promise--
PENNY: --no matter what--
DESMOND: --I'll come back to you--
PENNY: --I won't give up--
BOTH: I promise. I love you.