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In camera noise reduction typically uses a half length dark, doubled and then subtracted. As such, a series of full length darks, median combined, will give you better results, but obviously take more work to do.
The advantage of using in camera noise reduction is that the dark will be taken at very close to the same temperature as the light frame, so if the temperature is changing rapidly it may possibly give better results.
I'm not familiar with your camera's sensor, so I can't comment much on ISO other than to say an intermediate ISO setting can be better than a low setting, depending on amp design, as long as you are stacking or stretching your images. The reason is that the amp basically stretches the image as it reads it, rather than afterwards via software which loses precision. If you stretch a low ISO shot, you will end up with as much noise as the higher ISO shot, but there will be quantization effects that actually degrade the image quality.
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