The Large Synoptic Survey Telescope project was an early adopter of SysML and Model Based Systems Engineering practices. The LSST project began using MBSE for requirements engineering beginning in 2006 shortly after the initial release of the first SysML standard. Out of this early work the LSST's MBSE effort has grown to include system requirements, operational use cases, physical system definition, interfaces, and system states along with behavior sequences and activities. In this paper we describe our approach and methodology for cross-linking these system elements over the three classical systems engineering domains - requirement, functional and physical - into the LSST System Architecture model. We also show how this model is used as the central element to the overall project systems engineering effort. More recently we have begun to use the cross-linked modeled system architecture to develop and plan the system verification and test process. In presenting this work we also describe "lessons learned" from several missteps the project has had with MBSE. Lastly, we conclude by summarizing the overall status of the LSST's System Architecture model and our plans for the future as the LSST heads toward construction.