It's not clear yet. The Global Gateway project will be completed in 2004 so
there is a long way to go. With all the shakeups in airline alliances, it's
hard to say if Virgin and Continental will be in a partnership then. Hope
they will as these are two quality and customer-focused carriers. I would
imagine that Virgin will move to C when the project is completed, if the
alliance still exists then.
Most of Continental's code-share partners, such as Air France, Alitalia
(Alitalia code-shares with Continental but CO operates the flights to
FCO and MXP from Newark), CSA operate from Terminal C. Northwest
does not though, and Virgin uses Terminal B, which houses the US
Customs and Immigration center and is used by most foreign flag
carriers that operate from EWR.