To address the copy-paste issue between Premiere and After Effects, try resetting your preferences
For the recent projects not displaying in Premiere, clearing the media cache might help; go to
Edit > Preferences > Media Cache and delete the cache database. <div>
To fix the Media Encoder shortcut issue, check your keyboard shortcuts in Premiere by going to
Edit > Keyboard Shortcuts and ensure SHIFT+ALT+M is assigned correctly.
This may sound all vague but they may work since I don’t see why they woulnd’t