Ok, from one Jersey boy to another, I can tell you that my favorite places to eat are all great places to eat with kids. I have taken my 3 y/o son to all of them. I Like:
Magic Kingdom Area
Chef Mickey's without a doubt! Great food and great character interaction.
Hoop De Doo Revue at Fort Wilderness - good times, great show, and the best fried chicken I have ever had.
The Luau at the Polynesian - I haven't been there recently but I hear they have made some changes to this, that if true, I might not like it any more.
Ohana - at the Polynesian, great family style meal.
The Whispering Canyon at Wilderness Lodge - this is a GREAT time LOADS of fun and surprises. Ask for the Kethcup and a large drink.
Tony's Town Square - good Italtian foor in the Magic Kingdom
Liberty Tree Tavern - Great family style in the Magic Kingdom
Epcot Area
Japan - My personal favorite. They have the hibachi style cooking where they cook in front of you.
LeCellier - Canada pavilion. I have yet to get in here, but I hear it is absolutely wonderful. It is a steakhouse.
Electric Umbrella - nice counter service place to eat.
ESPN Zone at Boardwalk - You can walk here from Epcot. Cool place, your kids will enjoy the "interesting" placement of the TV's
Hollywood Studios area
50's Prime Time Cafe - in Hollywood studios. Keep your elbows off the table, and make sure to join the clean plate club. Although the repercussions are always fun too
Anmal Kingdom area
Rain Forest Cafe - just outside the park but easy to get to. Lots of fun, and great atmosphere.
Boma - at Animal Kingdom Lodge. If your kids are a little adventurous food wise, this is a neat place because there are some different types of food items in the buffet.
I think that this covers all of the places that we like to go that are good for families. There are a few others, if you want to get a babysitter while there, and you and your wife go to dinner one night, I would HIGHLY reccommend the California Grill on the rooftop of the Contemporary. Wonderful food and a gorgeous atmoshpere. I hope this helps, and if there are any other questions, post them up and I am sure you will continue to get great answers.