In my opinion, it depends on how high up the side-firing woofer operates, and how steep the crossover is.
Below about 150 Hz, the bass is pretty much omnidirectional from a woofer 12" or smaller. So the bass is going to be boucing off the walls pretty much the same regardless of where the woofer is on the box.
Also, in the deep bass region (where wavelengths are usually longer than the room's dimensions), the ears do not even register a tone if presented with less than one full wavelength. So by the time the ears have heard the signal long enough for it to register, the room response has already swamped the first-arrival sound.
So what you hear will be strongly influenced by the room no matter where the woofer is placed on the cabinet. I don't really have strong feelings for or against side-firing woofers; as long as they don't go up too high they're probably fine.
That being said, there may be factors that I haven't taken into account, so hopefully those who have more experience with side-firing woofers than I do will comment.
Duke