Ukraine, Arab Spring, Syria, Venezuela. These are only some few geopolitical fields in which key US NGOs played a central role through dirty covert operations, aiming regime change.
This is not to say that all NGOs are Trojan horses. It is not the case that every group or program that receives money from US aid or the National Endowment for Democracy or a similar organization is thereby automatically a deep state change agent, that is not how the Trojan horse technique works, no. What makes these NGOs so effective as disguises for regime change operations is that much of the time they are doing what they claim to be doing providing aid assistance and charity where it is needed. It is for this very reason that the US and its allies can so effectively smear NGO skeptics as crazy.