Let's begin with the approach in the OP. Then, we have
$$\int_0^a f(x)\,dx\ge \int_0^{f^{(-1)}(b)} f(t)\,dt + ab - bf^{(-1)}(b) \tag 1$$
Since the integral on the right-hand side of $(1)$ can be written as
$$\int_0^{f^{(-1)}(b)} f(t)\,dt=bf^{(-1)}(b)-\int_0^b f^{(-1)}(x)\,dx$$
we find after simplifying and rearranging terms the coveted inequality
$$\int_0^a f(x)\,dx + \int_0^{b} f^{-1}(x)\,dx \ge ab$$
with equality if and only if $f(a)=b$. And we are done!
Alternative Approach
Here, we present an alternative approach under the additional assumption that $f(x)$ is differentiable. To that end, we proceed.
Let $G(a,b)$ be the function given by
$$G(a,b)=\int_0^a f(x)\,dx+\int_0^b f^{(-1)}(x)\,dx-ab$$
Note that $G(0,0)=0$. Now, note that we have the first partial derivatives
$$\begin{align}
\frac{\partial G(a,b)}{\partial a}&=f(a)-b\\\\
\frac{\partial G(a,b)}{\partial b}&=f^{(-1)}(b)-a
\end{align}$$
and the second partial derivatives
$$\begin{align}
\frac{\partial^2 G(a,b)}{\partial a^2}&=f'(a)\\\\
\frac{\partial^2 G(a,b)}{\partial b^2}&=\left(f^{(-1)}\right)'(b)\\\\
\frac{\partial^2 G(a,b)}{\partial a \partial b}&=-1\\\\
\end{align}$$
Since $f$ is strictly monotonically increasing, $f(a)\left(f^{(-1)}\right)'(b)>0$, and the determinant of the Hessian is, therefore, always positive. Hence, $G(a,b)$ is a minimum when $f(a)=b$ and $f^{(-1)}(b)=a$. The minimum is therefore,
$$\min_{(a,b)}G(a,b)=\int_0^a f(x)\,dx+\int_0^{f(a)} f^{(-1)}(x)\,dx-ab=0$$
Therefore, $G(a,b)\ge 0$ with the equality holding only for $(a,b)=(a,f(a))$. Finally, we can write for $a>0$ and $b>0$
$$\int_0^a f(x)\,dx+\int_0^b f^{(-1)}(x)\,dx\ge ab$$
with equality only when $b=f(a)$.