One Solution could be to unset EDI Validation strictness in EDI properties of a party. Just select EDI Properties->Party as Interchange Sender, then ACK Generation and Validation Settings. There is a checkbox labelled EDI type. If you uncheck this checkbox, Biztalk Server 2006 R2 EDI receive pipeline d’ont proove message on EDI conformness anymore.
Visual SVN is a helpful tool for managing Biztalk Server 2006 projects with subversion. With help of software packages Subversion and Tortoise all projects under Visual Studio can be managed – inclusive checkout and commits.
By the way, with Visual SVN it is possible to manage SQL Server Integration Service projects (Business Intelligence) under versioncontrol of subversion.