In the time since the question was originally asked, an additional possibility has arisen.
If you are using the Symbolic Toolbox inside LiveScript, and you use a symbolic variable name that is the English spelling of a Greek letter, then if you display the contents of an expression involving the variable, then the variable will be formatted as a symbol. This applies only to LiveScript and only to the content, not to the name of the variable holding the content.
theta_dot = sin(theta)^2
theta_dot(t) = 
eqn = phi_ddot == sin(theta)^2
eqn(t) = 
the display of "theta_dot =" would be plain text and then the sin(theta)^2 would be nicely formatted. "theta_dot" would not be nicely formatted because... well, design decision really. But the display of eqn would display "eqn =" as plain text without trying to format it, but the phi_ddot is on the right side, part of the expression, so it would be nicely formatted. So in practice you can get both sides formatted if you make it an equality to be displayed.