Hint: Use the fact that $\zeta(s)=\sum_{n=1}^{\infty}n^{-s}$ for $\sigma>1$. Then since all the series converge absolutely, we may freely rearrange everything, and bring the integral inside a double series, leading to the result.

Warning! Spoiler/Solution Follows:

For $\sigma>1$, since $\zeta(s)=\sum_{n=1}^{\infty}n^{-s}$, we may write $$\left|\zeta\left(\sigma+it\right)\right|^{2}=\zeta\left(\sigma+it\right)\overline{\zeta\left(\sigma+it\right)}=\sum_{n=1}^{\infty}\sum_{m=1}^{\infty}\left(mn\right)^{-\sigma}n^{-it}m^{it}.$$ Now, we bring the integral inside the sum and split into cases depending on whether or not $\frac{m}{n}=1$. When $m\neq n$ then $$\int_{-T}^{T}n^{-it}m^{it}dt=\int_{-T}^{T}\left(\frac{m}{n}\right)^{it}dt=\frac{i\left(\frac{m}{n}\right)^{-iT}-i\left(\frac{m}{n}\right)^{iT}}{\log\left(\frac{m}{n}\right)}.$$ It is then not hard to show that $$\sum_{n=1}^{\infty}\sum_{m\neq n}\left(mn\right)^{-\sigma}\frac{i\left(\frac{m}{n}\right)^{-iT}-i\left(\frac{m}{n}\right)^{iT}}{\log\left(\frac{m}{n}\right)}$$ is bounded in absolute value for a fixed $\sigma>1$, and hence factor of $\frac{1}{2T}$ them implies that the off diagonal elements contribute $0$ in the limit. When $n=m$ , the integral is exactly $2T$ , so we conclude that $$\lim_{T\rightarrow \infty} \frac{1}{2T}\int_{-T}^{T}\left|\zeta\left(\sigma+it\right)\right|^{2}dt=\sum_{n=m}\left(mn\right)^{-\sigma}=\sum_{n=1}^\infty (n^2)^{-\sigma}=\zeta(2\sigma).$$

Edit: Corrected last line.


Someone may have some better hints, but perhaps this will help (I'm looking at at a calculation of $\int_{-T}^T |\zeta(\sigma+it)|^{2k}\ dt$, in case there are discrepancies in my answer). First, note that $|\zeta(s)|^2$ is not holomorphic (since it is real-valued), so trying to use holomorphy is probably not helpful. Instead, let's be direct. Write $\zeta(s)$ as a partial sum (of terms less than $T$) plus error, $S+E$. Now, your integral is $\int_0^T (S+E)(\bar S+\bar E)$. Expand the integrand and bound (in $T$) all the terms other than $\int_0^T |S|^2$ (they should all vanish when you divide by $T$ and take the limit). Then bound that term (just multiply everything out and collect the correct terms together, this step may be difficult). I hope I haven't given you more than you want. I can provide further steps if you need them.