If you already have problems with inflammation with your intestines then yes coffee can aggravate those symptoms but coffee is not a direct cause of intestinal inflammation.
If you have Chron's or Inflammatory bowel disease you should avoid drinking coffee because it can cause the symptoms of those diseases to get worse.
Also some people have problems with stomach acid problems or other digestive issues and sometimes coffee can irritate your stomach.
Caffeine stimulates the central nervous system, which can cause the stomach to produce excess stomach acid and as a result the excess stomach acid that some people experience can gas gastritis and even ulcer formations.
If coffee is making your stomach hurt or irritating your intestinal inflammation, I would avoid drinking coffee at least for awhile and speak with a doctor about it to get tested for gastritis or other digestive issues or any of the other diseases if you don't know you have them already.
You might want to try switching to caffeine free coffee and see if the stomach pain goes away and if so then you may only have to drink caffeine free coffee instead of coffee that contains caffeine.