I've got three kids...14, almost 9, and almost 7. Oh, and I've got one on the way. I was symptomatic with Crohns with my last pregnancy and was diagnosed a couple years afterward. So, my oldest knew me "healthy". The younger two did not. Being that she is a teenager, my 14 year old rolls her eyes and makes jokes about my pooper not working. My boys just run circles around me and make all kinds of trouble. So, I have learned two things being a parent of young children while being ill...
1) Noone is going to do it for you, so be selfish and take care of you first. This is the only way to be a good parent. Your children will take this self care attitude with them and mirror it in adulthood, which will most definitely help them to be better and more well adjusted people in the long run. They will be less resentful of others since their own needs will be met independently.
2) Don't sweat the small stuff. So, the kids are mad you can't run around with them? Take them to the park anyway and let them do the running while you sit on a bench. So, your floor hasn't been mopped in 3 weeks? Leave it until you are feeling up to it, hire help, or give your kids the opportunity to try their hand at giving the floor a wipe down. No, it won't be perfect, but showing your children how to be adaptable to life circumstances is a bigger favor to them than having a sparkling clean house.
Oh, and in particular with a newborn, just do your best and leave the rest up to someone else...they truthfully aren't going to remember if you let them cry for 5 extra minutes while you finished a shower/went to the bathroom/grabbed a sandwich. I know it is heartbreaking to hear a baby cry, but it doesn't always mean that whatever it wants at the moment is more important than what you might need to take care of yourself. Babies don't know how to ask for what they want in a nice way, its all scream all the time even if all they need to do is fall asleep!
Here is to hoping we all can enjoy life a little bit more with a little less IBD anguish...