Missiles don't have any "important organic bits" that cause catastrophic survival failures if they get ... removed ... unexpectedly ...
LBB5.80, p42:
The problem of pushing manned craft (jump capsules or grav vehicles or small craft) through a flickering black globe is ...

You really don't want that flickering "many times per second" factor to ... unceremoniously and randomly

REMOVE

...
let's call them "body parts" ... of any personnel passing through the black globe flickering field.
Sure, you might be able to survive with 10% of your body mass missing ... but would you
want to ...?
I mean, you're talking about something on the order of doing this ...
I recommend you rethink the assumptions underlying what you're attempting to do with this idea.