Had some problems with DyndoLOD for example. The one that's available is obviously a later version. You can't run it from within TESVEdit anymore. Actually you can't run it from withou MO at all. You need to run it externally altogether. Therefor there will also be no data in the overwrite folder. You can make a new Mod called LODGen or something like that, and then copy all the data in there, from DyndoLOD's output directory.
Oh, and DyndoLOD won't run without errors, or at all, if you have your DSR, Patchus Maximus, Bashed and Open Cities selected. And you also need to deselect the previous version of Dyndolod if you happen to have one - or delete it. Found all that out by trial and error. Just as one example.
Thanks for your help and advice though, much appreciated!