protagonist:
I was using it this way: the "good" guy in the story
What it REALLY means: the main character of the story

Fact of the matter is, it doesn't matter if the protagonist is good or bad. A protagonist is simply the main character, or characters. It does not distinguish whether it is the hero or the villain.

antagonist:
I was using it this way: the "bad" guy in the story
What it REALLY means: a person who actively opposes someone or something

So, essentially, the antagonist tries to throw a wrench in the protagonist's plans. It doesn't matter who is good and who is bad, it just matters who the main character is, and who tries to cause problems for the main character.

So, once I got these issues out of the way, I realized I had most everything pretty right, but I'll share those, too.

scene:
a sequence of continuous action

Some think this one is just the surrounding where something takes place, but that will be addressed in the next jargon term. This is the actual sequence of action. Are they talking? Are they fighting? Are they running, watching a movie, eating, or taking a walk? That is the scene.

setting:
where a scene takes place

This one describes the place. The setting is where things are happening, and the scene is what is happening.