We study the cyclotomic exponent sequence of a numerical semigroup S, and we compute its values at the gaps of S, the elements of S with unique representations in terms of minimal generators, and the Betti elements b ∈ S for which the set {a ∈ Betti(S) : a ≤S b} is totally ordered with respect to ≤S (we write a ≤S b whenever a − b ∈ S, with a, b ∈ S). This allows us to characterize certain semigroup families, such as Betti-sorted or Betti-divisible numerical semigroups, as well as numerical semigroups with a unique Betti element, in terms of their cyclotomic exponent sequences. Our results also apply to cyclotomic numerical semigroups, which are numerical semigroups with a finitely supported cyclotomic exponent sequence. We show that cyclotomic numerical semigroups with certain cyclotomic exponent sequences are complete intersections, thereby making progress towards proving the conjecture of Ciolan, García-Sánchez and Moree (2016) stating that S is cyclotomic if and only if it is a complete intersection.