Let me see if I can get this right. The way I understand it, the pull-pull should give you more positive deflection of your rudder. The reason for this is it is constantly pulling regardless which way you go left or right.With a pushrod set-up you have push-pull which means one way it pulls, & the other way it is pushing the pushrod which can lead to flexing of the rod giving you less positive deflection to the push side. The longer the pushrod the better chance for flexing I would think. There for with the short set-up out the side of the fuse would be less likely to have any flex in the pushrod while it is in the push mode.

I have the Mini Edge 540 by E-Flite too. I chose to go ahead & use the pull-pull that came with it. It was a hassle to set up, mostly because you are working with such little components, it is however working incredibly well now that I have managed to get it set up. It has very positive deflection in both directions I mean like right now!! I don't know that it wouldn't still be just as responsive set up the easy way with the cut-outs that are allready there for you to put the servo in the back. It is such a short distance for the pushrod I doubt you'd even notice the difference in performance, especially since you stated you're not really looking for 3D. The one thing you may want to consider with that particular model is balancing. With the pull-pull you get to put the servo up front & done this way I still had to get my battery as far forward as possible to get the CG right. If you put your tailfeather servos in the rear you may end up having to add weight to get it to balance. With a model that size weight is the enemy, any weight even just a few grams can make the difference. Bottom line is I think it's a better set up. The question is do you want to invest the extra effort to do it or not? It may not be hard for you at all, I got fat little fingers lol so it was all about the needlenose pliers & tweezers. You can use a piece of pushrod to carry the wire thru the fuse for ya. Turn it upside down & use the square cut out in the covering that is allready there to help ya see what you are doing. You'll get a little feeling of accomplishment once you've done it, I did. Good luck.