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Logic, though it's not so much due to the subject matter itself, so much as the accompanying narrative that it is the "foundation" for all of mathematics, compelling students to abandon their mathematical intuition in exchange for a "rigor" that is almost never productive.
It doesn't help that even good mathematicians can be susceptible to this: Principia Mathematica is more well-known, but Bourbaki is the example that better illustrates the pitfalls of this mindless foundationalism.
