This post shows how to move WSUS Content and Databases to different partitions? Start by checking the size of the Volumes by looking at the Server Storage. Open SBS Console and select the Backup and Server Storage Tab. Next, select Server Storage to determine the space available on each partition. When highlighting the C: drive you'll see the size of the different components that you may wish to move with Storage Wizards. We’ll focus on moving the WSUS Components. Under the Storage Task the Move Windows Update Repository Data Wizard only moves the downloaded content. This’ll not move the WSUS Metadata or SUS database (SUSDB.mdf and SUSDB.ldf). To Move WSUS Content: Open SBS console and select Backup and Server Storage. Select Server Storage tab. Click Move Windows Update Repository Data Wizard. When prompted to take a backup, select Yes. Select new drive location and click Move. During the move the wizard’ll create a WSUS directory on the new location and’ll begin copying the contents into the <Drive>:\WSUS\WsusContent directory.

Full Article: SBS blog