Something else to consider is that every hand primer I've ever seen uses a Toggle Linkage to provide the leverage need to seat even a "tight" primer. Because of this there is very distinct limit to the stroke of the hand primer. As a result a case with a deeper than normal primer pocket or a "short" drive pin in the hand primer can result in primers that aren't fully seated.
I would suggest you take note of the headstamp on the cases that misfired, because if it is an issue with a particular brand of brass you can avoid them. If you find that misfires are a continuing issue with a variety of case brands you may want to contact the manufacturer of your hand primer.
PS; in an effort to combat the misinformation and rumors that are constantly quoted as fact I can tell you that at one point I had all my S&W revolvers tuned to an 8.0 lbs DA trigger weight. At that weight both Federal and CCI Standard primers functioned with 100% reliability in Double Action. However, when I tested some Remington UMC I had a misfire rate of about 65%. So, I would not say that CCI has the hardest common primer, Remington does. As a result of this testing I now have retuned all of my S&W revolvers to a 9.0 lbs DA trigger weight.
However, I will note that CCI Magnum primers are harder than the standard pressure primers. Something I discovered when I picked up a used Dan Wesson 15-2 with an aftermarket mainspring. In that revolver the 38 specials ran fine in Double Action but when I changed to 357 Magnum with CCI550 primers 1/2 of the rounds wouldn't fire in Double Action. BTW, the Dan Wesson now has a Factory spec mainspring and a DA trigger pull I would estimate at about 13.5 lbs. On the plus side it's a very smooth trigger and with a quick even pull it's not as bad as it sounds.