Having gone down into the lair of the Morlocks themselves, and made the interesting observation that the Morlocks were carnivores, the Time Traveller is struck by the horror of a conclusion that he avoids thinking through there and then. It is only later, when he considers the terror that the Eloi have of night and the way that they sleep together in huge huddles, and the way that the Morlocks are only able to go out of their subterranean dwellings at night that the full horror of the truth comes upon him. Note the following conclusion:
I tried to look at the thing in a scientific spirit. After all, they were less human and more remote than our cannibal ancestors of three or four thousand years ago. And the intelligence that would have made this state of things a torment had gone. Why should I trouble myself? These Eloi were mere fatted cattle, which the antlike Morlocks preserved and preyed upon--probably saw to the breeeding of. And there was Weena dancing at my side!
What is interesting about this quote is the way in which the Time Traveller tries to talk rationally about his conclusions, in a "scientific spirit." However, in spite of his attempts of attaining rationalism, what prevents him is the very real presence of Weena, an example of an Eloi, dancing there beside him in all of her beauty. The love that the Time Traveller has for Weena prevents him looking at this conclusion with anything else but the utmost abhorrence.