All british lion eggs come from vaccinated chickens however I asked my GP when I got pregnant about those and he still said it's a risk. He put enough doubt in my head to avoid runny eggs. At the end of the day it's unlikely you'll have a problem, but it's the same with drinking in pregnancy etc. there's always a risk, it's up to you whether you take it.
Personally I avoided runny eggs along with everything else you should avoid as I figured it was only 9 months. Also bear in mind eggs will aid constipation which is another pregnancy side effect.