This is the first thing I had in mind to mod too, I found it annoying that there is no option to turn this off. I am always scrolling to the bottom of the build list to find a building or wonder only to scroll back because it is "recommened". Does anyone know if the Firaxis programmers will fix this in the next patch? I feel a little intimidated by all of the files to mod it myself.
EDIT: I have looked briefly at the python files in the .\Assets\Python directory
In the file CvAdvisorUtils.py it has a function on line 373 called cityAdvise(), it appears to be the code that determines which is the best unit and building to build for the city, but I think this is only for the popups that can be disabled in the options screen already. Does anyone know where the python code for making the popup list of build option (and also tech choices) is?