I prefer paragraphs to be indented and to have a slight separation between paragraphs (a few pixels - I generally set a space of 0.20em to 0.25em). I use blank lines, short horizontal rules, 3 (or more) asterisks, or similar to indicate a thought break. Generally, I will use blank line(s) within a page or a short horizontal rule/three asterisks at the bottom of a page.