It's possible to disable the animated sequence for raising/lowering pop-up targets. Solution is known: this setVariable ["nopop",true,true];
A remaining problem is when you fire at target, target lowers but raises 3 seconds after even if the variable nopop is set to true.
The reason is that the EH of this object is fired and it calls the \training\data\scripts\targetP_Inf_F_Hitparts.sqf (in arma3\addons\structures_F.pbo).
This little script doesn't work as intended when the target is hit, because it ends by an animation raising again the target, instead of let it downed.
This is a problem for each script invoking nopop variable for scheduling all target apparitions with randomized delays. Shooting at them should not lead to an immediate raise (3seconds in fact), but let the scripter decide when this raise occurs.