In some patients it can be difficult to tell that the vessel you are looking at in short axis is the vein and not the artery. Not good to watch the needle enter the artery. The problem with long axis is you only see the one vessel at a time. If you push down with the probe to make sure it is compressible, it is possible for the probe to slide slightly sideways and actually place you over the carotid instead.
The big benefit to short axis is that you always see both the carotid and the IJ. What you want to do then is get really good when you can just slide the probe in short axis further distal down the neck as you go so you can actually follow the tip of the needle into the vein while still in short axis. It's fairly advanced U/S use, but it's probably the best way to place an IJ line using the U/S IMHO.