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I also ran into this issue, thank you for the insight!

As far as I could tell there is no general way to backtrack from the internal sorting of the hyperplanes without reimplementing a lot of the internal functionality of the class. Is there a particular reason for sorting the hyperplanes each time an object is constructed?

I'm assuming the line where sorting occurs is here: https://github.com/sagemath/sage/blob/1da6df404d3ea7ff3019e16ea50d65923c1f4ece/src/sage/geometry/hyperplane_arrangement/arrangement.py#L3485