I have a conjecture, that the following holds for arbitrary integers $n$, $k$ such that $0\leq k \leq n$:
$$\sum_{a=0}^{n} \sum_{b=\max[0,a-(n-k)]}^{\min[k,a]} \sum_{c=\max[0,a-(n-k)]}^{\min[k,a]} a (n-a)!a!{k\choose{b}}{k\choose{c}}{n-k\choose{a-b}}{n-k\choose{a-c}}(-1)^{b+c}=2^{n-1}nk!(n-k)!$$
So far, I haven't been able to find a counter-example or to prove it. I checked for many values of $n$ and $k$ numerically and I found that it is true for $n\leq 200$.
Thanks to Sudix I found this answer that helped me find out the solution, which I will repeat here for the sake of completeness (I corrected one mistake in the expression for $a_{m,k}$).
So, first let us re-label the summation indices in the conjecture to coincide with the notation of the cited answer that we will use ($k\rightarrow m$, $a\rightarrow k$, $b\rightarrow r$ and note what Sudix also pointed out, that the the sums are summing the same thing, therefore it is squared):
$$\sum_{k=0}^{n} k {n\choose{m}}{n\choose{k}}^{-1} \left(\sum_{r=\max[0,k+m-n]}^{\min[m,k]} (-1)^{r} {m\choose{r}}{n-m\choose{k-r}}\right)^2=2^{n-1}n$$
Note, that with the expression for $a_{m,k}$ we can rewrite what we have to prove:
$$\sum_{k=0}^{n} k {n\choose{m}}{n\choose{k}}^{-1} a_{m,k}^2=2^{n-1}n\tag{1}\label{1}$$
It is important to note that everything that has been said in the proof before stays valid. Therefore, using that $\binom{n}{m}a_{m,k}=\binom{n}{k}a_{k,m}$ we can write that $$\sum_{k=0}^{n} k {n\choose{m}}{n\choose{k}}^{-1} a_{m,k}^2=\sum_{k=0}^{n}k \,a_{m,k}a_{k,m}\tag{2}\label{2}$$
Let us note, that
$$a_{m,k}a_{k,m}=a_{m,n-k}a_{n-k,m}\tag{3}\label{3}$$ (see proof below)
Consider the following identity (we are summing the very same thing going through the same indices just from the other direction) $$\sum_{k=0}^{n}k \,a_{m,k}a_{k,m}=\sum_{k=0}^{n}(n-k) \,a_{m,n-k}a_{n-k,m}\tag{4}\label{4}$$
Using \eqref{3} we have that
$$\sum_{k=0}^{n}k \,a_{m,k}a_{k,m}=\sum_{k=0}^{n}(n-k) \,a_{m,k}a_{k,m}\tag{5}\label{5}$$ $$2\sum_{k=0}^{n}k \,a_{m,k}a_{k,m}=n\sum_{k=0}^{n} \,a_{m,k}a_{k,m}\tag{6}\label{6}$$ We know from the proof that $\sum_{k=0}^{n} \,a_{m,k}a_{k,m}=2^n$. Therefore, we have that $$\sum_{k=0}^{n}k \,a_{m,k}a_{k,m}=n2^{n-1}$$ which is exactly what we wanted (see \eqref{2}).
Now let us prove \eqref{3}.
$$a_{m,k}=\sum_{r=max(0,k+m-n)}^{min(m,k)}(-1)^{r}\binom{m}{r}\binom{n-m}{k-r}\tag{7}\label{7}$$ $$a_{m,n-k}=\sum_{r=max(0,m-k)}^{min(m,n-k)}(-1)^{r}\binom{m}{r}\binom{n-m}{n-k-r}=\sum_{r=max(0,m-k)}^{min(m,n-k)}(-1)^{r}\binom{m}{m-r}\binom{n-m}{k+r-m}$$
Now if we introduce $s=m-r$ and we take care of the limits we get \eqref{7} and an extra $(-1)^m$ factor, that is $a_{m,k}=(-1)^m a_{m,n-k}$. It is easy to check that also $a_{k,m}=(-1)^m a_{n-k,m}$. Therefore, $$a_{m,k}a_{k,m}=(-1)^{2m} a_{m,n-k}a_{n-k,m}=a_{m,n-k}a_{n-k,m}$$.
Thank you for all your help! A nice combinatorical solution as InterstellarProbe suggested would still be desirable though.