In general, i prefer 1-2-3-4 on an EBG, sometimes going to 1-2-4 in the lower positions. 1-2-3-4 has some real advantages, but you have to be careful not to murder your hands. If 1-2-3-4 throughout is killing your hands, maybe another approach should be considered.
If you look at your hand when it's in good playing position (that is, thumb behind the neck, more or less, and fingers curved over the fingerboard), you'll see that the stretch you can get between your middle finger and your ring finger is less than the stretch you get between index and middle or even ring and pinkie. For that reason, I think many people will find it easier to use 1-2-4 in low positions and switch to 1-2-3-4 in higher positions. I have, I think, something like normal hands for a 6' guy, not particularly large, and I sometimes find 1-2-3-4 uncomfortable in 1st position. So I'll skip the ring ringer if I need to. I imagine this could be even more the case for those of you who have 35" or even 36" scale instruments.