The ambiguity inherent in defining the absolute Galois group $G_\mathbb{Q}$ - that it is determined only up to inner automorphisms - arises from the fact that one has to choose an algebraic closure of $\mathbb{Q}$ and there are many choices. Viewing the Galois group as fundamental group, choosing an algebraic closure amounts to choosing a base point with respect to which the fundamental group is defined.
This naturally leads to: what is the set of all algebraic closures of $\mathbb{Q}$? Is there a meaningful sense in which it forms a topological space? What are its topological properties? Is it path-connected? Is it $K(G_\mathbb{Q}, 1)$?
The answer I feel is obvious, but I'm too obtuse to see it.
A tangentially related question: is there a good example of a situation/theorem where working systematically with fundamental groupoid rather than fundamental group has proved crucial to the argument?