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I normally process and do any fix-ups in Startools for each image separately and then export them. I make sure that each image is developed so that as much information as possible is brought out. So even though an object may be much brighter in Ha than say OIII I make sure both images are of a similar 'brightness'.
Then I bring the 3 images into Photoshop and then copy the OIII image into the B channel of my Ha image and copy the SII image into the R channel of the Ha image.
Then per channel curves, levels, etc.
I'm still very much learning but this fits in with my day to day experience of working with images (I work as a VFX artist). Sometimes I use Nuke to combine my SII/Ha/OIII into RGB as it's much more efficient at colour correction and dealing with channels, of course I still use PS to finish it off though.
Also as I have got into LRGB imaging I have been using Startools to combine the 4 channels but, unlike with NB imaging, I haven't found the need to shrink the star sizes in any one channel of an LRGB image.
I haven't used Maxim yet but I'd like to give it a go, I hear only good things about it.
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