Notice that
$$
3^{-k-1}f(n,k+1)/3^{-k}f(n,k)=\frac{{2n+2k+2\choose n+k+1}}{{2n+2k\choose n+k}}\frac{{n+k+1\choose n-k-1}}{{n+k \choose n-k}}.
$$
The first factor here equals
$$
\frac{(2n+2k+2)!}{(2n+2k)!}\frac{(n+k)!^2}{(n+k+1)!^2}=\frac{2(2n+2k+1)}{n+k+1}.
$$
The second is
$$
\frac{(n+k+1)!}{(n+k)!}\frac{(n-k)!}{(n-k-1)!}\frac{(2k)!}{(2k+2)!}=(n+k+1)(n-k)\frac{(2k)!}{(2k+2)!}.
$$
For instance,
$$
\frac{3^{-k-1}(2k+2)!f(n,k+1)}{3^{-k}(2k)!f(n,k)}=2(n-k)(2n+2k+1)
$$
is an integer. Multiplying several fractions of this type together, we see that for any $k\leq n$ we have
$$
\frac{3^{-k}(2k)!f(n,k)}{3^{-0}0!f(n,0)}\in\mathbb Z.
$$
Hence
$$
\nu_3(3^{-k}(2k)!f(n,k))\geq \nu_3(f(n,0)).
$$
Next, for $k>0$
$$
\nu_3((2k)!)=\left[\frac{2k}{3}\right]+\left[\frac{2k}{9}\right]+\ldots<
$$
$$
<\frac{2k}{3}+\frac{2k}{9}+\ldots=k,
$$
which means that
$$
\nu_3(f(n,k))-\nu_3(f(n,0))\geq k-\nu_3((2k)!)>0,
$$
as needed.