Ok, here are the steps to reproduce the problem:
1. make sure in Default Directory Options that "Automatically download to default directory (No Prompt)" is
not checked.
2. download this example .torrent:
http://www.legaltorrents.com/get/378-barry-schwartz---the-real-crisis-we-stopped-being-wise.torrent and open it in Vuze.
3. you will be prompted for where to save the data. Click the Browse button and select your ~/Downloads folder (or any other folder you want).
4. click "Ok". In a few minutes you will have the folder "~/Downloads/TED - Barry Schwartz - The real crisis_ We stopped being wise", which contains several files and another folder named "Content" which contains a video file of Barry Schwartz, who is a very interesting writer.
5. watch the video. It's very interesting. And soon it will be gone.
6. remove the torrent from Vuze, but don't delete the data. For example, right-click and choose "Remove and Delete Torrent File".
7. re-download the .torrent file and open it in Vuze.
8. this time, browse and instead of selecting "~/Downloads", make the following minor mistake: select the folder containing the existing files as the location to store the files. That is, select "~/Downloads/TED - Barry Schwartz - The real crisis_ We stopped being wise". That folder name will now show in the field labelled "Location to save data" in the middle of the "Open Torrent(s)" dialog box. On the other hand, you might notice that the field labelled "Save Location" at the top of the same dialog box says "~/Downloads/TED - Barry Schwartz - The real crisis_ We stopped being wise/TED - Barry Schwartz - The real crisis_ We stopped being wise". If not, don't worry - I didn't notice that either.
9. press the "Select All" button, then the "Unmark Selected" button, since you don't want to download any files, just seed the ones you already have. Then click the "Ok" button.
What I expected to happen:
First, I would realize I had made a minor mistake in step 8. Then, I would expect an extra empty folder to have been created inside the original torrent folder. That is, I would expect the folder "~/Downloads/TED - Barry Schwartz - The real crisis_ We stopped being wise/TED - Barry Schwartz - The real crisis_ We stopped being wise" to be created. And I would expect that folder to contain another empty folder named "Content". That is all. My existing files in "~/Downloads/TED - Barry Schwartz - The real crisis_ We stopped being wise" would not be touched, and I could just delete the superfluous folder and start again, this time choosing "~/Downloads" as the save location.
What actually happened:
The empty folder "~/Downloads/TED - Barry Schwartz - The real crisis_ We stopped being wise/TED - Barry Schwartz - The real crisis_ We stopped being wise" was in fact created as I expected. However, it did not contain an empty folder named "Content", which I did not expect it to not do. And, all the other files in the enclosing parent folder, that is, within "~/Downloads/TED - Barry Schwartz - The real crisis_ We stopped being wise" were recursively permanently deleted without warning, leaving behind only an empty folder named "Content". Then I got hungry and ate a sandwich, and then I wrote this post.