Yours is the first report here of FTFs on an Ilion produced Whelen, I'd contact H&R. Is the loaded round flush with the chamber face if you place a straight edge across the chamber, or is the round slightly recessed below the straight edge? Ideally there shouldn't be any gap there, if there's very much, you'll get no fires. If the chamber isn't cut too deep, they can modify the hammer to allow a deeper pin strike, you could do it too, but a chamber cut too deep allows too much headspace which isn't good. It could be bad ammo too, the shoulder pushed back too far during manufacturing, you might try a different source of ammo to see how it fits in the chamber.
There's a cure for the excess headspace too, I've done it on my 35Whelen Improved, you remove the extractor and thin the back side of the extractor post so that it's about .020" thinner so it will hold the round against the standing breech, it has to be thinner so it doesn't stop against the breech face before it has removed all of the excess headspace, then silver solder or epoxy a steel shim to the front side of the post so the case can only go into the chamber so far when the action is closed, I've done this on a few others that had too much headspace, it works well.
Tim