Hello eheller5,
To help resolve this issue, try creating a new user account and set up the mail rules there to see if the same thing occurs. This will let you know if there is an issue within your user account, or if the issue is occuring on the entire system. This article shows you how to create a new user account:
Change Users & Groups settings on Mac - Apple Support
Create a new user or group.
•Click the New Account pop-up menu (you may be asked to enter your password), then choose a type of account.
* Administrator: An administrator can add and manage other users, install apps, and change settings. The new user you create when you first set up your Mac is an administrator. Your Mac can have multiple administrators. You can create new ones, and convert standard users to administrators. Don’t set up automatic login for an administrator. If you do, someone could simply restart your Mac and gain access with administrator privileges. To keep your Mac secure, don’t share administrator names and passwords.
Thanks for using the Apple Support Communities, and have a great day!