I really enjoyed the first couple of seasons. I actually sought the opinion of folks here, who recommended the show. Later seasons have begun to grind for me and I no longer watch it. I have grown to really dislike Bones herself.
It's because they didn't have the courage to go down the implied autism/Asperger's route but ever so gradually turned her into a clown as time went by. This isn't unique by any measure, you understand. Very few shows make it past 3 or 4 seasons with their quality unimpaired.
Yeah, I think the writing of her character was exceedingly shoddy. They write Booth better. Maybe it's because it's easier for them (as in the writers) and us to understand people like him, but no so much someone like Brennan. I really wish they'd explored what you wrote. That would have been phenomenal.