The fact that there is a maximal algebraically independent subset of $B$ over $A$ can be proved using Zorn's lemma in the same way as if $A$ and $B$ were fields.
If $S$ is a maximal algebraically independent subset of $B$ over $A$, then every element of $B$ is algebraic over $A[S]$. Therefore every element of $\operatorname{Quot}(B)$ is algebraic over $A[S]$, hence over $\operatorname{Quot}(A[S]) = \operatorname{Quot}(A)(S)$. Thus $S$ is a maximal algebraically independent set in $\operatorname{Quot}(B)$ over $\operatorname{Quot}(A)$. By definition then, $\operatorname{Card}(S)$ is the transcendence degree of $B$ over $A$.
In your last part, the answer is yes, by definition of transcendence degree and the foregoing arguments.