I will use the fact that the Hamel basis of every infinite dimensional separable Banach space has the same cardinality continuum see. If we assume the continuum hypothesis the conclusion is easy to obtain. Indeed it is well known that the Hamel basis is uncountable, hence its cardinality is at least continuum. On the other hand the space contains a dense countable subset $A,$ hence every element is a limit of a sequence with terms in $S.$ There are at most continuum of such sequences, hence we are done.
It turns out the continuum hypothesis is actually not required, the result is due to H. E. Lacey.
Consider the space $X=\mathcal{F}(\mathbb{N})$ consisting of sequences with finitely many nonzero terms. We introduce two norms on $X$
$$\|x\|_1=\sum_{n=1}^\infty |x_n|,\qquad \|x\|_2= \left |x_1-\sum_{n=2}^\infty nx_n\right |+\sum_{n=2}^\infty |x_n|$$ For the sequence $v_k=e_1-{1\over k}e_k$ we have
$$\|v_k-e_1\|_1\to 0,\qquad \|v_k\|_2\to 0$$
We complete $X$ with respect to either norm and obtain two separable Banach spaces $X_1=\ell^1$ and $X_2.$ We have
$$X_1=\ell^1=X\oplus Y_1,\qquad X_2=X\oplus Y_2,$$ where $Y_1,Y_2$ are linear subspaces and $\oplus$ denotes the algebraic direct sum. The Hamel bases of $Y_1$ and $Y_2$ have the same cardinality. Indeed the Hamel bases of $X_1$ and $X_2$ have the same cardinality continuum, while the Hamel basis of $X$ is countable. Therefore there exists an algebraic linear isomorphism $\varphi:Y_1\to Y_2.$ Hence the mapping $$\Phi(x\oplus y)=x\oplus\varphi(y)$$ is an algebraic isomorphism between $X_1$ and $X_2.$ We introduce the norm $\|\cdot\|_3$ on $X_1$ by $\|x\|_3=\|\Phi(x)\|_2.$ Then the space $(X_1,\|\cdot\|_3)$ is isometrically isomorphic to $(X_2,\|x\|_2),$ therefore it is complete. Moreover
$$\|v_k-e_1\|_1\to 0,\qquad \|v_k\|_3=\|\Phi(v_k)\|_2=\|v_k\|_2\to 0$$
In particular the norms $\|\cdot\|_1$ and $\|\cdot\|_3$ are not equivalent. Hence the identity map
$I:(X_1,\|\cdot\|_1)\to (X_1,\|\cdot\|_3)$ is not continuous.