No, they were removed because of crashes, but many people have no crashes.
That may be true, but myself and others thought the roofs looked absolutely terrible. There was a mishmash of LODs, different colors including even a whiter color, and various other abnormalities that made those roofs look completely ridiculous and not at all what the designers actually intended.
If you could somehow just paint all roofs correctly along with their LODs well maybe that could be an option for the mod. But Vanilla colors IMO should not be tampered with much for the biggest city of the game.
Don't get me wrong, the mod is amazing and everyone respects the work being done. Bar none this is one of the THE BEST mods out there and Halk does amazing work. But crash or no crash there would have been endless bitching, from me too, if those roofs had not been made back to normal.
That is a HUGE change to make to a game for a texture overhaul. And it left a lot of people feeling it was extremely inconsistent. This was all on Nexus forums FYI.
At any rate I am VERY glad the roofs are normal now. The LODs alone would have took a long time for all those roofs let alone color matching the entire city. In my opinion and many others it is a complete waste of time.
There is so much that can be done in this game and little time to actually make the mod.