Interested to know that HandBrake is now back in the repos, I made some tests
to check if it's now FAAC-free. Unfortunately, it seems that someone just
imported HandBrake sources from the official PPA, and included that in the
Trisquel repo without making any change. The encoding option for FAAC is
still in place, producing playable MPEG-4 AAC streams. Even the source
packages does include the FAAC sources bundled.
For those looking into using HandBrake without FAAC, there are binaries
available for both Toutatis and Belenos. Get them from here:
Trisquel 6.0
http://tep.shoutwiki.com/wiki/Building#HandBrake
Trisquel 7.0
http://packages.ubuntu.com/search?keywords=handbrake&suite=trusty