We know that currently there is no capability to adjust the URL to a Transport only environment. There is only one Base URL in Worldserver leading to the porject environment. In case we would need the Customer consistently stay within Transport without accessing WS list of projects (hence just viewing and monitoring the Transport site and pages), it could just not be possible using the current quote-based workflows. In order to make the workflow-based quotes consistent there should definitely be a separate Base URL for Transport users only or for Workflow-based quotes at least. To summarize, email Notifications should enclose Transport based URLS, not WS ones, in order to lead users to Transport environment.
Best, Matteo Rozzarin