My kitten is scared of me?

I used to breed bengals, and I've had the same problem. I've had kittens, all socialized, and only a rare few continued to be skittish. Some cats ar just that way. I did have a cat that was like that, and honestly, it took the cat a good 3 to 4 months to finally come around. Oddly, she likes my 2 yr old, the best out of our family. What I did, was have her in a room for the first couple weeks. Which sounds like what you did. NExt i let her roam the house when I was home, (mainly i didn't know how she'd do with me gone). Once I knew she would pee and poo somewhere else in the house, I let her roam all the time. I just ignored her, let her get used to me, my family, the sounds and smells, etc. To this day, she runs from my husband, he's 6'5", so when he walks around the house, it feels like he's stomping. She is fine with me. IT takes time and patience, hopefully she will come out of it. I had a savannah once also, and he was friend;y, but wasn't a lap cat, didn't like the affection that a normal domestic cat would. Could be the breed. Also, you said you have a F2, it is more wild than domestic and that has a lot to do with it. The treat method won't work. She'll just learn on her own timing, that she is safe there. Good Luck!