I have also noticed the issue the OP mentioned and I quickly got out of the habit of using the ctrl- functions for headings.
Have a look at the image. In this example it is a blank page ready to move text into it. My first step is to create a level <h2> heading.
If I simply place my cursor on an empty line (line 10) to add the tags, then press ctrl-2 I end up with the tags spread as shown in the image...
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