I would like to configure the terminal so that it would leave a line after running a command. Just to make stuff cleaner. There is no such setting in "profile preferences".
I'm running 12.10.
To alter how bash works you need to edit the hidden file ~/.bashrc
First find the section that look like this:
and change it slightly to look like this (or cut and paste this in replacing the existing section).
The difference is subtle - just added an escaped newline '\n' before the user@machine prompt. Save the file and exit the terminal window. Changes will take effect next time you open a terminal window or log in to a console.
The reason you have to change both of the lines is that the first one is for the colour prompt, while the second one is for the default monochrome prompt. Actually, before you add in the new line, try the colour prompt first. It does help to delineate the prompt/command/result each time. You might like it. All you have to do is find the slightly earlier line that looks like
and uncomment it by removing the hash: