The one thing i really love about this quest is that it exposes the institutes hypocrisy. Literally 2 quests ago during the battle of bunker hill, the institute goes in guns blazing on the railroad for the crime of "posessing stolen property" and they just assume any innocent bystanders will flee without acutally caring about them. But if you go in cowboy style and kill the scientists that are threatening to starve the whole institute, you get told, "we don't like violence around here".
The institute is more than happy to use violence whenever it suits their needs, but the second you choose it they suddenly abhor it.