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The solution to the root problem turned out to be I was missing a few lines in my batch file Cygwin.bat. I found this out while checking out Elizabeth's page.
SET CVSROOT=:pserver:anonymous@cvs-mirror.mozilla.org:/cvsroot SET CVS_RSH=ssh
With regards to the make checkout and the make buld commands I followed Sherman's advice and Liz's instructions from her page.