No success so far.
I did a clean installation of Toad, did not copy user settings from previous installation and unchecked both "Format source before comparing" and "Ignore Case when Comparing Text" in the Merge Options menu.
It still gives me the same output when comparing and when I show the difference details the popup "No more diffences found" shows.
When I then copy over the output script and play it in the other dabase, and do another compare there is no more difference.... Which is very strange, because that means there was actually a difference in the first place...
Kind regards.