I will add onto AliShather's answer in order to get a complete answer. By using partial fraction decomposition with $\frac{1}{k^n(k+1)^i}$ we get that $$\frac{1}{k^n(k+1)^i} = (-1)^n \sum_{m=0}^{i-2} \frac{\binom{n+m-1}{n-1}}{(k+1)^{n-m}}+\sum_{m=0}^{n-2} \frac{(-1)^m \binom{i+m-1}{i-1}}{k^{n-m}}+\frac{(-1)^{n-1}\binom{i+n-2}{n-1}}{k}+\frac{(-1)^{n}\binom{i+n-2}{n-1}}{k+1}$$
This therefore means that $$\sum_{k=1}^{\infty} \frac{1}{k^n(k+1)^i} = (-1)^{n-1}\binom{n+i-1}{n}+\sum_{m=0}^{n-2}(-1)^m\binom{i+m-1}{i-1}\zeta(n-m) + (-1)^n\sum_{m=0}^{i-2}\binom{n+m-1}{n-1}\zeta(i-m)$$
Using $(1)$ again, we have that $$\frac{H_{k+1}}{k^n(k+1)^n} = \sum_{m=0}^{n-2} (-1)^n\binom{n+m-1}{n-1}\frac{H_{k+1}}{(k+1)^{n-m}}+\sum_{m=0}^{n-2} (-1)^m \binom{n+m-1}{n-1}\frac{H_{k+1}}{k^{n-m}}+(-1)^{n-1}\binom{2n-2}{n-1}\left(\frac{H_{k+1}}{k}-\frac{H_{k+1}}{k+1}\right)$$
Summing from $k = 1$ to $\infty$, we have $$\sum_{k=1}^\infty \frac{H_{k+1}}{k^n(k+1)^n} = \sum_{m=0}^{n-2} (-1)^n\binom{n+m-1}{n-1} \sum_{k=1}^\infty \frac{H_{k+1}}{(k+1)^{n-m}}+\sum_{m=0}^{n-2} (-1)^m \binom{n+m-1}{n-1} \sum_{k=1}^\infty \frac{H_{k+1}}{k^{n-m}}+(-1)^{n-1}\binom{2n-2}{n-1} \sum_{k=1}^\infty \left(\frac{H_{k+1}}{k}-\frac{H_{k+1}}{k+1}\right)$$
It is known that
$$\sum_{k=1}^{\infty}\frac{H_k}{k^q} = \frac{(q+2)\zeta(q+1)}{2}-
\sum_{k=1}^{q-2}\frac{\zeta(k+1)\zeta(q-k)}{2}$$ and since $$\frac{H_{k+1}}{k^{n-m}} = \frac{H_{k}}{k^{n-m}}+\frac{1}{k^{n-m}(k+1)}$$ we have that $$ \sum_{k=1}^\infty \frac{H_{k+1}}{k^{n-m}} = \frac{(n-m+2)\zeta(n-m+1)}{2}-
\sum_{k=1}^{n-m-2}\frac{\zeta(k+1)\zeta(n-m-k)}{2}+(-1)^{n-m+1}+\sum_{k=2}^{n-m} (-1)^{n-m+k}\zeta(k)$$
Combining, we have that $$\sum_{k=1}^\infty \frac{H_{k+1}}{k^n(k+1)^n} = \sum_{m=0}^{n-2} (-1)^n\binom{n+m-1}{n-1} \left(-1+\frac{(n-m+2)\zeta(n-m+1)}{2}-
\sum_{k=1}^{n-m-2}\frac{\zeta(k+1)\zeta(n-m-k)}{2} \right)+\sum_{m=0}^{n-2} (-1)^m \binom{n+m-1}{n-1} \left(\frac{(n-m+2)\zeta(n-m+1)}{2}-
\sum_{k=1}^{n-m-2}\frac{\zeta(k+1)\zeta(n-m-k)}{2}+(-1)^{n-m+1}+\sum_{k=2}^{n-m} (-1)^{n-m+k}\zeta(k) \right)+(-1)^{n-1}\binom{2n-2}{n-1} \cdot 2$$
Altogether, this means that $$I_n = \sum_{m=0}^{n-2} \binom{n+m-1}{n-1} \left(1-\frac{(n-m+2)\zeta(n-m+1)}{2}+
\sum_{k=1}^{n-m-2}\frac{\zeta(k+1)\zeta(n-m-k)}{2} \right)+\sum_{m=0}^{n-2} \binom{n+m-1}{n-1} \left((-1)^{m+n+1}\frac{(n-m+2)\zeta(n-m+1)}{2}+
\sum_{k=1}^{n-m-2}(-1)^{m+n}\frac{\zeta(k+1)\zeta(n-m-k)}{2}+1+\sum_{k=2}^{n-m} (-1)^{k+1}\zeta(k) \right)+\binom{2n-2}{n-1} \cdot 2-\sum_{i=1}^{n-1} (-1)^i \zeta(n-i+1)\left((-1)^{n-1}\binom{n+i-1}{n}+\sum_{m=0}^{n-2}(-1)^m\binom{i+m-1}{i-1}\zeta(n-m) + (-1)^n\sum_{m=0}^{i-2}\binom{n+m-1}{n-1}\zeta(i-m) \right)$$
This is an incredibly long formula, but some parts should be able to be simplified.
Edit: $$I_n = -2\sum_{j=1}^{\lceil n/2 \rceil} \binom{2n-2j}{n} \zeta(2j)-2\sum_{j=1}^{\lfloor n/2 \rfloor} \left( \binom{2n-2j-1}{n-1}(j+1)-\binom{2n-2j-1}{n} \right) \zeta(2j+1) +2\sum_{m=2}^{\lfloor n/2 \rfloor} \binom{2n-2m-1}{n-1}
\sum_{k=2}^{m}\zeta(k)\zeta(2m+1-k)+\binom{2n}{n}+
2\sum_{i=3}^{n} \sum_{m=2}^{i-1}(-1)^{i+m}\binom{2n-m-i}{n-m}\zeta(m) \zeta(i) + \sum_{m=2}^n \binom{2n-2m}{n-m} (\zeta(m))^2 + 2\sum_{m=3}^{\lceil n/2 \rceil} \sum_{k=2}^{m -1} (-1)^k \binom{2n-2m}{n-1} \zeta(k) \zeta(2m-k) + \sum_{m=2}^{\lceil n/2 \rceil} (-1)^m \binom{2n-2m}{n-1} (\zeta(m))^2$$
Here is Mathematica code for a function that finds this
f[n_] := -2 Sum[
Binomial[2 n - 2 j, n]*Zeta[2 j], {j, 1, Ceiling[n/2]}] -
2 Sum[(Binomial[2 n - 2 j - 1, n - 1]*(j + 1) -
Binomial[2 n - 2 j - 1, n])*Zeta[2 j + 1], {j, 1,
Floor[n/2]}] +
2*Sum[Binomial[2 n - 2 m - 1, n - 1]*
Sum[Zeta[k]*Zeta[2 m + 1 - k], {k, 2, m}], {m, 2, Floor[n/2]}] +
Binomial[2 n, n] +
2*Sum[Sum[(-1)^(i + m)*Binomial[2 n - m - i, n - m]*Zeta[m]*
Zeta[i], {m, 2, i - 1}], {i, 3, n}] +
Sum[Binomial[2 n - 2 m, n - m] (Zeta[m])^2, {m, 2, n}] +
2*Sum[Sum[(-1)^k*Binomial[2 n - 2 m, n - 1]*Zeta[k]*
Zeta[2 m - k], {k, 2, m - 1}], {m, 3, Ceiling[n/2]}] +
Sum[(-1)^m*Binomial[2 n - 2 m, n - 1]*(Zeta[m])^2, {m, 2,
Ceiling[n/2]}]