Optimus Princeps

Hi guys, hope u can help me with my little problem here. Im trying to mount a cylindircal fairing with a central core but im having probelms with structural integrity of the ship. When I throttle the stages on top of the fairing go "inside" of the fairing and dont let me close bays. What I'm doing wrong or missing here? Capture to show my problem: https://i.gyazo.com/4a2adbe5aba889cf7da00bac89732058.png As u can see the lab above the fairing is getting inside and when I speed up or down the ship in that section behaves like an accordion.. Can someone help me?