Sony has stated many times now that publishers can set their own prices (and the consumer must decide whether the price is worth it).
I believe the way prices are set has changed, it used to be the case that the publisher set the wholesale price and the store determined the actual retail price. Though in principle it was a simple conversion.
I know the intent was to move to an apple like model, where the publisher sets the retail price and Sony takes a percentage, but I don't know if the legal issues were cleared.
The odd pricing could just be some confusion.