QUOTE(Owyn @ Sep 4 2006, 05:50 AM)
try starforge then, to make it linked, just place one nydus, and it will show red line, and 2nd nydus you place will be the exit.
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SF can't link units. You have to do it manually (it's one of the "unknown" fields).
OP: Post the map here. I don't quite get what exactly your situation was, but I remember it being able to screw up (though not crash) when I was playing around with the unit links. You're using the latest version, right?