I think a better idea is to use apt, which has a filter, I have to look it up specifically, for installed packages that aren't in the repository. What that means is packages that were in Ubuntu but not in Trisquel and are thus non-free. This can be accomplished in Synaptic as well, if you go to Custom Filters it's one or more of those categories, but I need to double check which ones.

Also found a typo the line "#deb $MIRROR $RELEASE-backports main" before the EOF should be #deb-src.

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