I think you'll find this is how it is meant to be.
The Second Output parameter is designed to provide a simple surround sound functionality - i.e. being able to send a signal to a stereo channel set up behind the listener by panning between this and the main stereo channel using the Surround Balance parameter.
It doesn't make sense that every Multi part have a different Second Output, as this would imply that the Virus was capable of panning a single sound between 3 different stereo channels!
So, what this boils down to is that Surround Output is basically a Global parameter which is accessed via the Single Edit menu, and just like Tempo, can only be set to one value for all parts.
The parameter I suspect you may be looking for is in Multi Edit, and is called 'OutSel'. Here is where you select any one or pair of the six available outputs to which the part will be routed.
Hope that makes sense!
-=Ben
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