My microscopic equation is 2.8 points too wide for some reason, which is quite a lot. I am reluctant to ignore the warning because if I get more of them I'll start missing important things.
Code is:
Applying Snell's law (Equation \eqref{eq:snell}) twice gives us:
\begin{align}
\theta_2 &= arcsin \left( \frac{n_{vacuum}}{n_{mylar}} sin(\theta_1) \right) \\
\theta_1 &= arcsin \left( \frac{n_{mylar}}{n_{vacuum}} sin(\theta_0) \right)
\end{align}
which simplifies to
\begin{equation}
\theta_2 = \theta_0
\end{equation}
We saw earlier that there was a critical angle [blah blah more text...]
And the warning is:
Overfull \hbox (2.80157pt too wide) (page 6)
on line 226, which is the line containing the tiny \theta_2 = \theta_0.
I'm probably missing something relatively obvious but I just can't see it. Any idea ?

\sinand\arcsin. – fudo Jun 8 '11 at 13:50vacuumandmylarshould be written as\mathrm{vacuum}and\mathrm{mylar}. It makes a huge difference. – Karl Karlsson Jun 8 '11 at 22:01\mathit{...}. – TH. Jun 9 '11 at 12:49