The internal conflict of "The Cyclops" is when Odysseus what debating whether or not to kill the cyclops. If he killed the cyclops then they would be trapped. But they ended up not killing him. They just tricked him to get out of the cave.
The external conflict for this passage is man v.s. nature. In the story the men were stuck in the cave, but they ended up getting out the cave by troubling the cyclops.
The theme for "The Cyclops" is, don't judge a book by it's cover. By looking at the story you would have never have thought that all those little guys could have defeated the huge cyclops. But not expecting it, the men did defeat the cyclops.