The ending doesn't make sense? Spoilers Farseer & Tawny Man

[fool-ish]

But we still need to explain Molly, whose emotions are not fresh, and are overlain with a lot of grieving and letting go.

Yep, Molly had lived with her emotions since the day she left Fitz and this was why I thought she might have rejected him. She had grieved for him...no easy thing to take someone you once thought dead back in to your life and start again where you left off. But the ending is as it is and I suppose, ultimately their love overrode all else.