Zymex II is an excellent proteolitic enzyme and can be used as such for digestive problems. However to get the parasite elimination affect you want you have to take 5 a day for 8 days straight. Then again in a week.
And the Zymex II will help rebuild the intestinal flora, not directly but by eliminating the parasites. Parasites are very hard on the flora. If not too far south the flora will make a good comeback all on their own.
Problems with digestion, heartburn and constipation indicate liver involvment. So get to work on it with the DeWormer and flushes. Right now I wouldn't worry too much about the parasites Zymex II kills. Go with Barefoots DeWormer to get the ones in your liver. Then flush all those nasty's outta there.
As the liver gets opened up and the bugs get gone your digestion and overall health will improve. Might take some work though. The sooner you get to it the better.