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Contrary to what intuition or common sense would indicate: "Scientists made clear what may at first seem counterintuitive, that the capacity to be pleasant toward a fellow creature is ... hard work" (Natalie Angier).
1. (of an idea, proposal, etc) seemingly contrary to common sense
2. (Military) intelligence collected about enemy espionage
coun•ter•in•tu•i•tive(ˌkaʊn tər ɪnˈtu ɪ tɪv, -ˈtyu-)
counter to what intuition would lead one to expect.