A variety of gastointestinal conditions and diseases are of concern to the AMCDAerospace Medical Certification Division of the FAA in Oklahoma City.
These include:
Cirrhosis
Colitis (Update: Now a CACI Condition)
Hepatitis
Hernias
Liver Transplant
Peptic Ulcers
Splenomegaly (Enlarged Spleen)
Most of the concern relates to the possibility of sudden internal bleeding, but there are some other potential issues as well. The official list of dispositions is here.