Use the wildcard DNS entry, then use load balancing to distribute the load between servers, regardless of what client they are.
While you're at it, skip the URL rewriting step and have your application determine which account it is based on the URL as entered (you can just as easily determine what X is in X.domain.com as in domain.com?user=X).
EDIT: Based on your additional info, you may want to develop a "broker" that stores which clients are to access which servers. Make that public facing then draw from the resources associated with the client stored with the broker. Your front-end can be load balanced, then you can grab from the file/db servers based on who they are.