This is by no means a complete answer, but just the straightforwrd attempt-
Let $$\frac{ax^2+bx+c}{dx^2+ex+f}=\frac{m^2}{n^2}$$
Then $$(an^2-dm^2)x^2+(bn^2-em^2)x+(cn^2-fm^2)=0$$
which implies $$x=\frac{-(bn^2-em^2)\pm\sqrt{(bn^2-em^2)^2-4(an^2-dm^2)(cn^2-fn^2)}}{2(an^2-dm^2)}$$
To make $x$ a rational number, we want the expression $$E=\{(bn^2-em^2)^2-4(an^2-dm^2)(cn^2-fn^2)\}$$ to be a perfect square.
In your example, $E$ reduces to $\{(2n^2-m^2)^2-4(n^2-m^2)m^2\}$. As we can see here, the solutions either have $m=\pm n$ or $m=0$ or $n=0$. So, chances of a non trivial solution seem to be quite thin.
But, I tweaked your explicit example a little to $(a,b,c,d,e,f)=(1,2,1,1,1,0)$. In this case however, e have a very nice solution. We can see that
\begin{align*}
E&=(2n^2-m^2)^2-4(n^2-m^2)m^2\\
&=\{n^2+(n^2-m^2)\}^2-4(n^2-m^2)n^2\\
&=\{n^2-(n^2-m^2)\}^2\\
&=m^4
\end{align*}
So, for this particular choice of $(a,b,c,d,e,f)$, all rational values of $x$ will give a rational square root.