Don't panic, try touching them, man!
They are soft and flexible, they will fold, they will easily pass back through the holes again when deformed enough to fit through the holes. Since you have the gimbal off the aircraft, take a moment and remove the top cover on the gimbal shown at the top of your photo. Look at it closely, you can lift the front and back edges away from the gimbal with your fingernail or a small, flat blade screw driver just enough to let it pop free of the gimbal. Doing this will let you see how the anti vibration balls/vibration dampers (that's what they are called) fit at the holes and assure they are all in place.
For reference purposes, only two vibration balls have pins running through them. Do not try to remove them. Do not become alarmed because you only have two of them. Two is the correct number. Once you discover how pliable the rubber flange is, just think about it for a minute and with any luck you'll figure out that you can cram the flanges through the holes a little at a time or slip 1/3 to 1/2 of a flange through the holes and work the other side through. Just don't use anything sharp and pointy to do the pushing.
What you have is an example of how our expensive purchases are treated by freight carriers. The way the box was tossed and kicked around was far in excess of what the packaging could protect things from. However, the design of the vibration system is such that only a minor disturbance of the parts fit occurred. Everything will work fine once they are re-fit.
