Is there a way around this problem and minimize the number of reference required?
You can use Transforms (XPath, enveloped, etc.) to put multiple pieces of a document
into one reference. But it's hard to say if you would benefit from it because the complexity
of XPath expression can degrade performance.
Is there another mailing list better suited for these types of questions?
You might want to try XMLDSig working group mailing list on W3C web site: http://www.w3.org/Signature/Overview.html
Aleksey
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