In section 3 of his paper "Mappings of reducible 3 manifolds" McCullough, proves that every self-homeomorphism of a reducible 3 manifold can up to isotopy be written as a composition of particularly nice homeomorphisms, namely permutations of homeomorphic factors, automorphisms of factors, flips of $S^2 \times S^1$ factors and so called slide homeomorphisms.
Does there exist a similar result for homeomorphisms of 3-manifolds with boundary i.e. can a self-homeomorphism of a 3-manifold with boundary be decomposed into similarly nice parts?
As Sam Nead pointed out in this generality this is too much to ask. Does something similar hold if one requires the homeomorphism to be the identity on the boundary?