@Elliot Gram, Thanks for posting in Q&A.
From your description, I know you have deployed apps via Intune but failed to install them on devices and not show in company portal.
To clarify this issue, please check the following.
1.Which app types do you deployed?
2.Which assignment? Required assignment or Available assignment? If it is available assignment, you need to deploy this app to a user group and sign in the company portal app to install this app.
3.Follow the link below to see if you can solve the issue.
4.Ensure that you have configured Show this as a featured app in the Company Portal to Yes.
5.How many devices were affected? Does devices are Azure AD joined or Hybrid Azure AD joined?
6.Check the Event Viewer to see if there exist some error message.
If there is any update, feel free to let me know.
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