Except that doesn't make sense. Yes, Margaret did give Thomas a copy of her amulet.. But to what end? As simply a remembrance of her? Or so he could recognize his brother or his brother could recognize him? She also implanted a message for Harry in Thomas's mind so when they did meet, they could eventually soul gaze. Thomas also knew from the beginning that Harry was his brother.. Now Lara could have told him that, granted, but... Also we have the word of Lash, "she found the strength to leave Lord Raith for a reason.." No, the only thing that makes sense given all the information, is Margaret met and fell in love with Malcolm before she left Lord Raith. Also she was already pregnant, or had planned to be, because she met Malcolm, then planned to get pregnant by him with a star child.
Mira, this isn't a bad argument. You could be correct. However, I think there is another possibility to consider. Something happened that allowed for Margaret to have an epiphany or see the light, whatever metaphorical expression you wish to choose. Could Uriel have been involved? It's possible and even makes sense, but let me get back to the main story. Margaret finally sees through to the end game of the scheme she was working on with Lord Raith and Duchess Ariana. We could say Margarite finally sees Raith for what he really is or discovers his connection to the Outsiders and perceives their plan. Either explanation works, but the scales fall from Margarete's eyes and she understands that first she must get away. She can't think through a plan to counter what she set in motion until she escapes.
However, if the plan was to conceive a starborn child with Lord Raith or a mortal and then allow that child to be used for the benefit of two of the vampire courts, simply escaping the Raiths put a stop to that plan. (I'm not saying that was the plan, but it's a possibility.)
This makes me think about Papa Raith's reaction to Margarite's vanishing act. I doubt he decided to kill her right away. Raith could have performed an entropy curse within a day or a few days of Margarite leaving him. I forget what was said in Blood Rites about the entropy curse, but I do remember it could only be performed at specific times of the day. I think it is much more likely that Raith wanted to get Margarite back and put her under his complete control. Plus, with his ego, he would have wanted to personally punish her for defying him. Think of the scene with Raith and Murphy in Blood Rites as an indication of how he would have reacted. Only after realizing that catching Margarite LeFay was virtually impossible did Lord Raith decide to kill Margarite. Another explanation is Lord Raith found out Margarite had married a mortal. If they were in love with one another Lord Raith knew Margarite was protected from his further manipulation and control. Perhaps that realization made Lord Raith act decisively.
Margarite probably guessed that she had some time before Lord Raith would become murderous. She also had other former allies plus the White Council to worry about. She meets Malcolm Dresden. Is Uriel involved in that happening? Maybe, it seems plausible. In any case, only after falling in love with Malcolm does she put together her plan to have a starborn child to counter the vampires and, or Outsiders.
Something happens that tips off Margarite that her time is growing short. She knows the Fae and specifically she knows Lea. That is when she calls upon Lea and makes the deal that will protect her unborn child from just about everyone except Lea. Margarite is in a hurry and doesn't make the best deal she might have made. She doesn't get protection for Malcolm. She makes the false assumption that Malcolm Dresden; being a vanilla mortal, won't be of any interest to the supernatural community. She wasn't thinking clearly.
Lord Raith gets hit with Margarite death curse and realizes she did it, but doesn't initially understand what is fueling the death curse. He didn't realize that the Margarite's child might be an anchor for her death curse until the child had already disappeared, probably after Malcolm Dresden's death.
There is my scenario. It's not perfect, but I think it works.