HTML In Posts After Update

Since the last update, my posts from postie are not coming out as expected. I can not tell if the issue is from the system which sends the email, or postie itself.

My system is a crm which uses shortcodes to populate the email. Up until last week, this worked. Now, all that populates in wordpress is the shortcodes from the crm, although the email is full of content as it always has been.

I switched my setting Message>Preferred Text Type to HTML and the issue goes away. This makes sense. Im happy with that, but it leaves me with a new issue. Now the body of my text is over filled with dozens of p tags and a few divs usually. All of which are random and seem to have no order. Here is an example of just a part of a ppost. There are more in other parts of the post:
creating accessible spaces to celebrate the value of water. </p><p></p><p></p><p></p><p></p><p></p><p></p><p></p><p></p><p></p><p></p><p></p><p></p><p></p><p></p><p></p><p></p><p></p><p></p> </div>

Flip flopping the setting Messages>Allow HTML In Mail Body has no effect or change. Also, I use the Shortcodes plugin you sell for part of my data. I do not think its part of the issue. I think its either the html settings are changed in the code, or the content of the email is whacky in some manner.

Any ideas on what I can search for while troubleshooting?