Let $\mathcal{C}\subseteq \mathbb{N}^p$ be an integer cone. A $\mathcal{C}$-semigroup $S\subseteq \mathcal{C}$ is an affine semigroup such that the set $\mathcal{C}\setminus S$ is finite. Such $\mathcal{C}$-semigroups are central to our study. We develop new algorithms for computing $\mathcal{C}$-semigroups with specified invariants, including genus, Frobenius element, and their combinations, among other invariants. To achieve this, we introduce a new class of $\mathcal{C}$-semigroups, termed $\mathcal{B}$-semigroups. By fixing the degree lexicographic order, we also research the embedding dimension for both ordinary and mult-embedded $\mathbb{N}^2$-semigroups. These results are applied to test some generalizations of Wilf's conjecture.