The Rode is a fine mic - not an issue. You're right, the guitars sound very nice but there's a deep resonance that comes right out of the soundhole. That resonance takes up a lot of 'space'. If you put a piano part in there you'll notice a big difference in the guitar and piano sound - it might get a little 'muddy' because of the natural resonance. Moving the mic away from the soundhole reduces that resonance and exaggerates the higher end of the tone. It's fun to experiment with mic placement - you can make your guitar sound very, different depending on where you place it. (And you won't have to move it very far!! Just try pointing it up the neck and then down toward the bridge pins. Somewhere in there will be a 'sweet-spot' for your guitar.)
Try it and tell me if you find a mic placement you like better than the one you used. Maybe you will, maybe you won't. Like I said - there's nothing wrong with your guitar sounds - they're quite nice.
I'm anxious to hear some lyrics for this - it's a really nice piece of music. You've got some talent! Let's hear some more!
~Milan