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Sil,
A double stacked SM40 will effectively filter the solar light to a very narrow 0.4A bandwidth centred on Ha. No other light get through.
The RGB camera response will depend very much on the overlap of the Bayer Matrix filters within the camera. There's no easy way of adding additional filters to isolate the Ha wavelength.
Summary: Although the incoming light is 100% monochromatic (red, Ha) there may be a response recorded on the R and G pixels due to the Bayer filters. These should be ignored. Just work with the red channel.
Hope this helps.
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