I would think they would do this before anything strikes the craft. It's all a matter of how much the vacc suits hinder operations, but by that point, you'd think the ship would be designed to be operated efficiently by people in vacc suits.Would a ship go into a protective mode of venting the atmosphere (everybody suits up) to prevent explosive decompression when a missile strikes a craft?
Big knobs and levers to handle gloved hands, big button keyboards, extra space around things to accommodate larger, lumbering people.
Mind, at higher TLs, vacc suits may be like Super Hero painted on yoga pants with a bubble top. So, who can say.