There was the explanation. Anakin had found out about Obi-Wan taking the angry young man under him to try to teach him, to curb the anger that was so viciously felt toward Anakin. She supposed it was only a matter of time. Still, she was at somewhat of a loss as to how to explain this.
"Anakin," Padmé started, "I cannot speak for Master Kenobi, nor will I pretend to try. I can say that I have seen moments of genuine connection between your elder self and Master Kenobi -"
This was where Padmé was at an impasse. Anakin had been told so many half-truths, had been manipulated and lied to. It hadn't been just from Palpatine, either. It had been from the Jedi Order as well. Still, he was almost a teenager and didn't have the proper skills to cope emotionally. They had been drilled out of him. She had no desire, no with to traumatize him and leave him without a way to handle things. Did the intentions she held make it justifiable for her to leave out details, to (essentially) lie to him as the Jedi had? She had been watched the movies and the cartoons and worked at taking in what information she could, so she knew and understood some of the troubles that had lead them down a destructive path.
"Anakin," Padmé hated being at a loss. She was used to knowing what she stood for, having a strong instinct as to what was right. She knew the young man, "Galen," was from a future point. Between the "fictional" representations and the troubled young man, some level of honesty needed achieved. "I know that your elder self and I don't want to see you in distress, see you hurting, but I feel I should be honest with you despite the fact it's not good news. You deserve to know the truth. I'm afraid the man known as Chancellor Palpatine is Sith. He - manipulates a number of people. The changes between the Jedi Order - the Old and the New - are because Chancellor Palpatine declares himself Emperor. He orders the destruction of the Jedi."
"He's eventually defeated. The Jedi are reestablished and problems within the Order, problems ignored for a long time, are worked through. Master Kenobi survived the ordered destruction of the Jedi, but he's not the same man."