What is the best practice for driving IC enable pins?
I don't think that would be bad practice, just choose an adequate pull-down resistor. 

In order to make the design flexible though, you could also add a zero ohm jumper to that enable pin (a do-not-stuff component) along with the pull down resistor, just in case you need to do some debugging in the future, never know. That zero ohm jumper could connect to one of the GPIOs, Vcc, or some header pin you may want to add for debugging or whatnot.