How about profiles based on the core hardware? Zynthian could (already does) detect which Raspberry Pi is hosting, enable only engines proven to work on that platform and indicate in webconf the level of compatibility each engine has with the hosting. This may require a mod (I have already requested) to allow enable / disable of all engines, not just LV2 plugins.
I envisage a single list in webconf for all engines (with filters as appropriate) allowing each to be enabled and with a description of its compatibility with each RPi version (and other hardware!).
This means we don’t fork a lite version but allow user to have control in a curated environment.