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All this really depends on what you want to use it for.
For the moon the larger format camera will be better. I can say that Alan Friedman uses the larger format and his images are superb. You can still use the larger format for planetary, you will need to take slightly more frames in better seeing though, but being mindful of rotation.
The smaller format is best suited for planetary imaging but means that you have to do mosaics if you want to capture large areas on the moon. There is more work involved in doing this over the larger format.
For capture, try to buy an external hard drive with 7200rpm. This will allieviate most of the problems. I can capture at 53 frames per second on the moon and sun. For the planets I am limited to 43 fps. Although if you have a modest aperture your rates will be less. It also pays to get more RAM for your machine if you don't already have a gig or more.
So really horses for courses. If you see yourself doing a lot of moon work, then go for the DMK31. If you see yourself doing more planetary then the DMK21. The smaller pixels really does not come into play a lot. Alan Friedmans images on the moon and sun contain a lot of data and are almost flawless.
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