Qovas and Glenn Talbot collaborated against S.H.I.E.L.D.. They locked up Coulson and Melinda May in a cell and Qovas warned them that the Ionizer Missiles were aimed at the Lighthouse, threatening to destroy it should Coulson and May attempt to escape.
Despite Qovas' warning, May and Coulson escaped. Therefore, Qovas ordered his Remorath soldiers to launch the missiles. However, Deke Shaw distracted them from this task, enabling May to take them down. May and Shaw then worked on changing the missiles' target. They were confronted by Qovas, who fought against May but ignored what they had done.
Ultimately, Qovas was angered by May resisting his assaults. He decided to launch the missiles himself, but he was soon informed that May and Shaw had changed the target. While they escaped, Qovas watched as the missiles were fired and changed their course, flying towards Qovas' ship instead of the Lighthouse. The missiles then hit the spaceship, causing its destruction along with Qovas' death.
During their Search for Leo Fitz, a small group of S.H.I.E.L.D. agents encountered a Confederate Destroyer Ship which fired several Ionizer Missiles at the Zephyr One. Upon facing such threat, the S.H.I.E.L.D. agents used their Phase Harmonic Teleportation Device to escape, causing the missiles to miss their target and detonate in space.