Tell us which missions you experienced it on so we can test. There's soooooooooooooooooooooooo many missions that if only some are glitched it's impossible for anyone to ferret them out without more specific info.
Here we go... Our foundry missions are not crashing your computer. There is nothing we can do to cause that. Nothing. STO has been steadily increasing in crashes and disconnects for the last few patches; THEY need to clean up their code. IT IS NOT US.