Certainly God lives with us and in those who let Him, but he also gave us an irrevocable and permanent communication in the form of the Bible, His Word. And yes, the truth is the truth, no matter what we think about it and no matter what we believe. That's the thing about truth: It's not dependent upon anyone believing it. It simply is.
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What if what's in the Bible conflicts with the truth of what we observe in God's creation?