Before you try any of those excellent suggestions, try this. Just net 'em in the middle of the night. Once they've been in pitch dark for a few hours, and they're "sleeping" really hard, walk in and turn on the light and net 'em real quick.
When the lights come on, it takes em a couple minutes to wake up and their eyes to adjust to the light. Soon as you turn on the lights, they're like sitting ducks. Some fish are more vulnerable to this than others I've noticed.
You could also trap 'em. Guys who run reef tanks have this problem all the time. Search on reefcentral.com for "fish trap". They've come up with all kinds of ingenious ways to trap fish in their tanks.
Or, you could gig 'em, depending on how you feel about that. Different people have different ethics on that sort of thing, but it IS an option. Reef tanks have trouble with nasty crabs and aiptasia, and they'll just get a big long oyster fork looking tool to gig 'em.