I saw a snippet in the doco of a deleted scene between Obi and Padme talking at her apartment before Anakin arrived. Does it exist somewhere and do we know what they talked about?
TK is correct. Obi-Wan comes to see Padmé, and Padmé quickly realizes something is troubling him, which makes Obi-Wan say that she should be a Jedi because how good her intuition is. He says he is worried about Anakin, and Padmé says she is worried about him too. Obi-Wan also tells Padmé that he knows about their relationship and that he cares about them both (lining up with Padmé telling Anakin that Obi-Wan cares about them later in the movie). At this point he doesn’t ask about the baby, but if this scene had been included, Obi-Wan asking Padmé if Anakin is the father later on in the movie would have felt like a more obvious progression.
Unfortunately, this deleted scene has never included in any bonus disc. Only images and behind the scenes glimpses of the scene being filmed have ever been revealed.