I'm not 100% sure of what you are asking. Are you saying that based on a button pressed in the popup window, you want to redirect the main window (parent or opener) to a different URL?
If this is the case, then instead of using Response.Redirect, you need to send back some javascript to the popup window page that tells the parent window where to go:
opener.location.href="....";
This will tell the popup window's opener object (the parent window) what location to go to.
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Peter