A split mic setup would be analogous to putting one on the left side and one on the right, pointing towards the choir. The 3:1 rule in its' basic description is keeping the mics 3 times the distance away from each other as compared to the distance they are from the sound source. Think of putting two drum overhead mics up, but having them split apart. But, each mic is closer to the drums by 3 times than they are from each other. What can happen when not observing the 3:1 rule is that the overall freq. response from the output of the mics can be greatly altered to due phase cancellations and nasty stuff like that when the mics are combined back together at the mixer. Specifically, frequencies where the distance between microphones represents a 1/2, 1 1/2 .... wavelengths, there is phase cancellation big time. These frequencies can really drop ...almost to the point of not hearing them. For frequencies where the distance between microphones represents an even 1, 2 or 3.... wavelengths, there is the opposite effect, in that these frequencies are twice as loud making the mics output sound harsh, shrill, tinny,...etc all those negative terms.
Omni directional pickup patterns "could" work...but you are more suseptible (sp?) to things like feedback and picking up UNwanted sounds coming from directions other than the choir...as slight as they MAY seem.
Lemme put it this way.. mic'ing choirs borders on one of the MOST difficult situations in live sound, mainly because of extraneous sounds, not getting close enough to the source and getting full coverage.
If I had ONE shot at mic'ing the choir, and ONLY the two mics, I would split them apart, as describe above, get them as CLOSE to the choir as possible, and go from there. Otherwise, one mic in the middle would be similiar, but figuring you could get closer to more people with two (or more) mics. I would use a unidirectional pickup pattern and NOT an omni, as you might be actually supprised how loud those church organs can get (that's another subject as the old ladies love 110dB pipe organs but can't stand 95dB elec. guitars!). Actually, I would be more concerned about feedback with the omni mics.
You have some good mics. Hopefully, you'll be able to position them OK. Experiment, experiment, and a good luck. However, with my God, you don't need luck. He gives you great abilities instead