Let $B = \{x \in \mathbb{R^3}\ : ||x|| \leq 1\}$ be a unit ball in $\mathbb{R^3}$. Having computed the Fourier Transform of $B$'s characteristic function $\hat{f}(k)$, where:
$\hat{f}(k) = \int_{B} e^{-2 \pi i \langle k,x \rangle}dx, k \in \mathbb{R^3}$, I have difficulty proving that $\frac{\hat{f}(k)}{||k||^2} \in L^1(\mathbb{R^3})$.
I know that $|\hat{f}(k)| \leq \hat{f}(0)$, so $\frac{\hat{f}(k)}{||k||^2} \leq \frac{\hat{f}(0)}{||k||^2}$, and $\frac{\hat{f}(0)}{||k||^2}$ is integrable on any ball. But I don't think that thats enough to conclude that $\frac{\hat{f}(k)}{||k||^2}$ is integrable on any ball. Concerning integration on the outside of the ball, I am unsure how to proceed. Is there a general method of dealing with these types of problems?
You have correctly argued that $$ \int_{\|k\|\le 1} \frac{|\hat f (k)|}{\|k\|^2} \,dk < \infty $$ A bit more detail: a measurable function bounded by an integrable function is itself integrable. Loosely speaking, anything defined by an explicit formula is going to be Lebesgue integrable. To have a precise proof, note that $\hat f$ is continuous (since it's the Fourier transform of an $L^1$ function). Therefore, $\hat f(k)/\|k\|^2$ is continuous on $\mathbb{R}^n\setminus \{0\}$, hence is measurable there. Adding one point to the domain does not change measurability, since one point is a set of measure zero.
On the exterior of the ball, the Cauchy-Schwarz inequality does the job as both $\hat f$ and $1/\|k\|^2$ are in $L^2$ on that domain: $$ \int_{\|k\|\ge 1} \frac{|\hat{f}(k)|}{\|k\|^2} \,dk \le \left( \int_{\|k\|\ge 1} |\hat{f}(k)|^2 \,dk \right)^{1/2} \left( \int_{\|k\|\ge 1} \frac{1}{\|k\|^4} \,dk \right)^{1/2} <\infty $$