We're kind of in the same boat. Living with my bf and he never knew the sober me until recently. We've had our share of ups and downs since then, but we're trying to work things out. Lots of things that bother the sober me never bothered the drunk me because I was never well enough to care.
Thankfully my bf and I have been able to speak openly about the things that have been coming up, which has helped. Have you expressed your feelings to your boyfriend? What sort of things are bothering you?