The Bible, unlike some religious texts, calls its individual adherents to battle for truth with theology, not swords. In our daily lives Christians are called to fight ideas, not people. This proper understanding of New Testament Christianity has historically allowed for the tolerant coexistence of people with conflicting ideologies. But this is not what people today mean when they speak of “tolerance.”
Moderns understand “tolerance” as agreement or an endorsement. It is true that the Bible calls individual Christians to love their enemies, but that includes a love that will contend with their misunderstandings about God. We can never approve or endorse philosophies and lifestyles that oppose the truth, instead, like the Apostle Paul, we must be willing to “demolish arguments and every pretension that sets itself up against the knowledge of God” (2Cor.10:5). But this can never be without the presupposition that “the weapons we fight with are not the weapons of the world” (v.4).