In May, I rescued Cody (my first basenji) from what was probably a bad situation, although I don't know for sure. What I do know is that he was in pretty bad physical and mental condition when he came to live with me. While the physical damage was quickly healed, he is still learning how to be a loved member of a family. It took him a while to even figure out what treats were. He recently initiated play for the first time when previously his idea of play was when we chased each other around the house or yard. He still doesn't listen to commands although I'm pretty sure he understands some of them and we have been working on them for a while. I was recently laid off, but as soon as I can find another job, I am going to get him into training, which I will be excited to start. There are also times when I'm sure he doesn't like me very much and when he is still sometimes scared. I have to remember not to grab at him in certain ways when we are playing, and like you said about Prince, sometimes Cody enjoys being petted and others he will jump up and run away like you've hit him.
I've learned to be patient with him. Things that others consider normal (or semi-normal, we are talking about basenjis), like coming when called or just playing, are a big deal because he is still learning. He was left to his own devices for so long and probably punished for doing dog/basenji things if the way he flinches is any indication. Luckily he is motivated by food and affection, so ear scratches and cheek rubs work just as well as treats when rewarding him. While it is slow going, I do think he will eventually overcome his fear. He has already improved so much and is coming into his own personality. Lots of patience and lots of love goes a long way.