You've made great progress. Using the Arctangent addition formula, along with your result of $\arctan(f(x)) - \arctan(g(x)) = \arctan\left(\frac{1}{2}\right)$, we get that
$$\arctan\left(\frac{f(x) - g(x)}{1 + f(x)g(x)}\right) = \arctan\left(\frac{1}{2}\right)$$
The arguments are congruent modulo $\pi$ so, for some fixed integer $n$, we have
$$\frac{f(x) - g(x)}{1 + f(x)g(x)} = n\pi + \frac{1}{2}$$
From $f(1) = 1$ and $g(1) = \frac{1}{3}$, we get $\frac{f(x) - g(x)}{1 + f(x)g(x)} = \frac{1}{2}$, so $n = 0$. Thus,
$$\begin{equation}\begin{aligned}
\frac{f(x)-g(x)}{1+f(x)g(x)} &= \frac{1}{2} \\
2f(x) - 2g(x) & = 1 + f(x)g(x) \\
-f(x)g(x) + 2f(x) - 2g(x) - 1 &= 0 \\
-f(x)g(x) + 2f(x) - 2g(x) + 4 - 4 - 1 & = 0 \\
(f(x) + 2)(-g(x) + 2) & = 5
\end{aligned}\end{equation}$$
Note that, with $f(1) = 1$ and $g(1) = \frac{1}{3}$, both of the LHS factors are positive. Also, they remain positive since $f(x) \neq -2$ and $g(x) \neq 2$ (this is likely why that restriction is given since, otherwise, the LHS becomes $0$). Thus, by the AM-GM inequality, we get
$$\frac{(f(x) + 2) + (-g(x) + 2)}{2} \ge \sqrt{5} \;\;\to\;\; f(x) - g(x) + 3 \ge 2\sqrt{5} - 1$$
This shows the minimum positive value that may be obtained is $2\sqrt{5} - 1$, as you suggested, with this occurring when $f(x) + 2 = -g(x) + 2 = \sqrt{5}$.