In general, when we are trying to remove radicals from integrals, we perform a trigonometric substitution (either a circular or hyperbolic trig function), but often this results in a radical of the form $\sqrt{(f(x))^2}$, with $f$ being an arbitrary trigonometric function.
What most texts tend to do is simply take $\sqrt{(f(x))^2} = f(x)$, without the absolute value of |f(x)|, and the texts do not offer any motivation as to why $\sqrt{(f(x))^2} = f(x) \neq |f(x)|$. I would have assumed the correct way to proceed would be $\sqrt{(f(x))^2} = |f(x)|$. Why is this the case?
I'll give an example to show further explain what I'm trying to ask :
$$\text{Integrate} \ \ \ \int{\frac{1}{\sqrt{x^2 + 16}}}\ dx$$
We let $\ x = 4\tan\theta \implies dx = 4\sec^2\theta \ d\theta$ \begin{equation} \label{eq1} \begin{split} \implies\int{\frac{1}{\sqrt{x^2 + 16}}}\ dx & = \int{\frac{4\sec^2\theta \ }{\sqrt{(4\tan\theta)^2 + 4^2}}}\ d\theta \\ & = \int{\frac{4\sec^2\theta \ }{\sqrt{(4^2\sec^2\theta)}}}\ d\theta \\ &= \int{\frac{4\sec^2\theta \ }{4\cdot|\sec\theta \ |}}\ d\theta \ \ \ \ \ \ \ \ \ \ \ \ \ \ \ \ \ \ \ \ \ \ \ \ \text{(*)}\\ \end{split} \end{equation}
What most texts do is omit the absolute value in the last starred step. Thus the denomitor of the integral becomes $\ 4\sec\theta \ $ instead of $4\cdot|\sec\theta \ |$ and there is no need to break the integral up into cases. Why is that so? We have not assumed $\sec\theta > 0$, so how can $|\sec\theta \ | = \sec\theta$?