Not knowing what bullet you've used (full wadcutter....) ..
It might have to do with the position of the powder in the case, letmesplain...if the powder is all in the front of the case, it will "act" differently then if its in the back by the primer. Try this, point the muzzle at the ground, then gently raise it to the target, ( trying to keep the powder basically in the same position), repeat the same process for all the cylinders shots. Then do the opposite for the next cylinder full, raise the muzzle, and gently lower it to the target...again trying to keep the powder in the same position with each following shot.
It may be that the case isn't full enough to give you consistent results and ignition. And have you tried it with the small pistol primer? If you did, was it as "bad"? If not I'd give it a try.
BTW, its my understanding that if "secondary explosion effect" is real, ( all sorts of opinions on that one ) you might be there.... read this..
http://shootersforum.com/showthread.htm?s=78a3cfa0840fde406f95a93bad2c041b&t=13083..........
http://www.google.com/search?hl=en&rls=com.microsoft%3Aen-us&q=secondary+explosion+in+a+handgun&btnG=Search&aq=f&aqi=&aql=&oq=&gs_rfai=.....
I don't know if its "real" or not, but its enough, for me, to not load real lite revolver rounds.
Just my 2 cents.