Blaming the Crusades or the Inquisition on religion is short-sighted and inaccurate. At those times, the governments also controlled the religion. The Crusades were European governments warring against an invader who took land in the Middle East that they once held (by virtue of taking it from others). They used religion as an excuse, but it would have happened even if Caesar were still running things.
The Inquisition was the result of European governments taking back parts of Europe conquered by invading North Africans, the Moors. Again, it would have happened with or without religion.
There is only one religion that can be interpreted as calling for the takeover of all the Earth by whatever means necessary. You can say whatever you want about that philosophy, but for real death and destruction, you have to examine governments that had no religious underpinnings. Hitler, Stalin, Mao, and Pol Pot, alone, killed many times more people than all religions combined.