Really appreciate the reply.
By default once selecting the Korg M3 midi driver all 16 channels default to 'default' instrument definition. This is before installing the mapping tables for easier names. This default option allows to select korg instrument numbers and has the same issue before importing the .ins file. Therefore I don't think this is the issue.
When you say set a forced output channel on the MIDI track are you referring to assigning the Output, channel, bank and patch? If so then yes these are assigned but it only works if I assign to channel 1 and therefore only get one sound.
As for the Korg I read the manual and have found that there is a SEQ mode for external multi-timbral control so I am going to try that this eve and see if that resolves. Will let you know.