1) What are the automorphisms that permute the roots of $X^3-1$ ?
Let denote $\alpha =e^{2i\pi/3}$. To me, there is $$id, (1\ \alpha ), \ (\alpha \ \alpha ^2),\ (1\ \alpha ^2), \ (1 \ \alpha\ \alpha ^2)\quad \text{and}\quad (1\ \alpha^2 \ \alpha),$$
and thus, if $K$ is the splitting field of $X^3-1$, then $\text{Gal}(K/\mathbb Q)\cong S_3$.
Is it correct ?
2) Why an automorphism of $\mathbb Q(\sqrt 2,i)\longrightarrow \mathbb Q(i,\sqrt 2)$ can't send $i\longmapsto \sqrt 2$ ?
Gal$(K/\mathbb{Q}) = \mathbb{Z}/2\mathbb{Z}$. Any element of $\mathbb{Q}$ must be fixed by any automorphism in the Galois group, so the "automorphisms" $$ (1 \>\alpha) (1 \>\alpha^2) (1 \>\alpha \>\alpha^2) (1 \>\alpha^2 \>\alpha)$$ cannot actually be automorphisms since they do not fix $1$. That leaves only two possible automorphisms left, so the Galois group cannot be larger than $\mathbb{Z}/2\mathbb{Z}$. It cannot be trivial since $K \neq \mathbb{Q}$, so the Galois group must be exactly $\mathbb{Z}/2\mathbb{Z}$.
If $\phi$ is an automorphism and $x^2 + 1 = 0$, $\phi(x)^2 + 1 = 0$, so $\phi(x)$ can only be $i$ or $-i$. In general, automorphisms permute root sets of polynomials.