I've seen lots of examples of the neck of the casing striking the front lip of the magazine - you can see the indentations on pretty much every used magazine. However, the cycling bolt should have enough force to power through that little hitch and chamber the round. The tiny lip around the neck of the round shouldn't be enough to hang up the round during feeding, compared to the force of the bolt. It definitely shouldn't result in the bolt riding over the top of the round, which is what it sounds like you're describing, if the bolt carrier is fully cycling.
Is it possible the nose of the round is jamming against the receiver below the feed ramps? That's what happened with my Bushmaster that has rifle feedramps when I used a Surefeed E2 magazine for the first time in it, which may have led to some controversy over that new Okay magazine design. For whatever reason, the tip of the round fed straight into the flat face of the receiver below the rifle feedramp and caused it to jam.