I use the same scanner, but I have never observed the final scan to lower in quality than the preview.
It could be that the display parameters on your monitor are such that, when scaled down to fit the screen, the final scanned image becomes pixelated when viewed at a low magnification. If you zoom in to 50%, it should not llok jagged or tonally compressed. Is your monitor calibrated properly? How do your final prints look...do they exhibit this same issue?