I'm using Lubuntu 18.04, geany 1.32. When saving a new file, this window appears (the screenshot is cropped):  If I click on save now, the file is saved in this folder.
However, if I click on the white background (or somewhere similar), the first folder is automatically selected. (Nothing happens if there are only files but no folder) I can not unselect the folder, I can only select a file instead, but then my target filename is changed to this file's name.  If I click on Save and the folder is selected, instead of saving the file in the current folder, the selected folder is opened: 
So if I want to save a file in a folder which contains a folder, I somehow need to take care to not accidentally click there. I have this problem not only with geany but also with other programs, e.g. firefox.