Wasn't sure whether to post this here or in Stable Foundations, but since updating my mods this month, I've encountered an issue where buildings affected by a beacon will lose their beaconed bonuses when placed on foundations and enjoy only the bonuses from the foundation.
This shows up in the building tooltip as being affected by a single beacon with 0% transmission efficiency.
I've tested this in a new save as well, so I don't think it's a migration issue.