He has accomplished the scientists goal, but the scientist is not happy, for his livelihood has now been destroyed. Swifts clear implication is that even though the Houyhnhmns are smart, they do not know how to use that knowledge for the benefit of society, only for their own prideful agrandizement.
Throughout Gullivers Travels, the Houyhnhms are shown to be an ideal gone wrong. Though their intent might have been good, they don't know how to do what they want to do because they are filled with pride. They mislead Gulliver and they even mislead themselves. The satire on them is particularly well explained by the new born Houyhnhm who, having just been born, exclaims, "With this sort of entrance, what must I expect from the rest of my life!" .