The megapixel race and the differentiation of the cameras in any one company's product line help set the price point. In the Nikon line for example, many of the cameras have a 12 megapixel sensor. The D300s and the D90 are reputed to use the same, APS-C sized 12.2 MP sensor made by Sony. But the D300s costs much more than the D90 costs.
Nikon's D3s and D700 also use a 12.2 MP sensor, but in those bodies it is a FF sensor, and the D3 series body costs MORE money than the D700 body.
Canon's professional sports/action camera the EOS 1D-Mark III had a 10.3 MP sensor of the APS-H or 1.3x FOV size, and that camera cost $4500, while the Canon 7D has a 17.8 MP sensor, and the body sells for $1699. When comparing megapixel counts, we have to look at the size of the pixels (area, in microns), the size of the sensor, AND the generation of the sensor and the associated hardware and in-camera software.
As to your original question: at High ISO values like 6400 and 12500 and 25000 and so on, Nikon's D3s camera with only 12 million pixels produces cleaner images,with less noise and a more-pleasing image overall, than cameras that have SMALLER pixels and 16.4 million and 22.1 million pixels. So, YES, larger pixels in cameras of the same or concurrent generation, have actually what one could call "better image quality" at elevated ISO levels. In good, bright light however, the situation changes, and the higher the MP count, the higher the resolution, which is where cameras like the EOS 5D Mark II and Sony A900 and Nikon D3x really look fantastic!