Corrupt projects have always been a danger, and every version of SONAR has corrupted projects for me. A search of the forum will show issues with corrupt projects going back at least to SONAR 4.
As long as the CWP file format is closed and undocumented and no tools exist for editing or repairing it, this will always be the case. The only strategy for protecting yourself is frequent backups.
Backing up projects is a pain because they're so large. However, you can get a lot of insurance by simply copying the .cwp file. A single corrupt wave file is much easier to recover from than a corrupt project file.