They forfeit an agenda and you lose a resource? most of the time that's either a fair trade or bad for the corp.
Bad resources to lose and how to deal?
Loaded Kati? Clear her a little more often. Adjusted Chronotype? In Anarch you probably go trash Corporate Town and then Deja Vu it back to get your click losing resources back under control. In Adjusted Chronotype Beach Party Shaper it is a worse situation but presumably you still have Aesop's around to clear out your click losing things.
If you are doing Supplier Andy, maybe you lose key hardware?
Most of the time though losing a single resource isn't that terrible a trade if the corp is forfeiting an agenda, and then you go and trash Corporate Town.
What single key resource are you most worried about losing in Andromeda?