Some NPCs will have different dialogue. For example, Sotha Sil's dialogue is different in Summerset if you did Clockwork City in order first.
But there's nothing that's going to change the outcome. Morrowind > Clockwork City > Summerset is the only really connected storyline. While those will make less sense out of order, they were designed to be standalone.
There are lots of examples of NPCs recognizing your past actions/meetings if you do the DLC in order (and sometimes even if you don't). But nothing that changes the outcome of the story itself.
Edited by MLGProPlayer on September 8, 2019 10:47AM