Luckily I turned tamper protection off awhile back fearing a situation like this. I was able to script an smc -stop/copy sylink operation. It's kind of messy being I need a different version of it for 32 bit, 64 bit, and each SEP version, but it works.
I am having an issue on the workstations that have passwords though. The password has a space at the end, and I don't think that is making it through.