** DISCLAIMER ** You do what you feel is safe for your flesh and equipment, a primer is just a primer, not worth hurting anything over.
With that said, I’ve found my self in this situation before. Just last week as a mater of fact. Normally I would slowly push the bad primer out, seat a new one and get on with my life. Ammo box winds up with 99 loaded rounds not 100. Things being the way they are with components, I did exactly what you are thinking about. Pushed the upside-down one out SLOWLY and as gently as possible. Flipped it over and seated it in its proper orientation. Being sure there was no noticeable damage to the cup or anvil before reseating. Marked the case with a sharpie so I would know what one to look out for. Brought it to the range and gave it a go. Round went bang, no noticeable difference in POI, life is good.
Again, I’m not saying you should do this. This is just my recent experience and 2 cents.