There are some sew-on eyes. Amazon has some:
http://www.amazon.com/Sew-On-Wiggle-...dp/B001E5VR7K/
I'm pretty sure they would not survive a washing machine and dryer experience very well. I learned the hard way with my daughter's stuffed animals to wrap a long sock around the eyes and cover the head and sock with another sock -- all to protect the eyes from abrasions. This would be hard to do on a quilt. I would say, if you are going to use these on a quilt, the quilt would best be washed as if it were a precious quilt -- meaning it could be put into a top-loader machine but should not be allowed to agitate (stop machine and push down by hand to agitate), spin cycle, rinse but again with no agitation, then spin. It would also need to be laid out flat to dry.