If anyone still wants to know how to do this, I figured out how to get force protocol encryption/SSL to work with SEPM on SQL. I won't say step by step how to do it because I'm sure Symantec doesn't want me breaking their product ;)
The current version of SEPM at this time is 11.6005.562, so this may change depending on what you use. I also have SQL 2008 at version 10.0.2740. I replaced jTDS with the latest version from sourceforge and added ssl=require to the URI in the server config file. Just adding ssl on its own with jTDS 1.1 didn't work. There are additional options if you want to fall back to unsecure SSL or require strong SSL certificates.
Like I said, I'd be more descriptive, but I don't want my first post to brand me as that guy