Hard to say as you've given basically no info to go on, but I'm going to take a shot in the dark @thesethoseandthis .
Is it possible the second account is using business policies? Under the shipping section do you see something that says to select a policy instead of a shipping service?
If the answer is yes, read on. If the answer is no, you'll need to come back and provide more info and/or screenshots to show the problem.
----------
Business policies help me keep my sanity. Manage and edit them (or disable them to go back to how you used to set up your listings) on this page.
Once you set up your shipping policies and name them so you can easily identify them, you can go to your active listings and bulk edit to assign your new policies.
After the initial mess of policies that are created when you first sign up are no longer tied to active listings, you can delete them.
It takes a little time and work to set it up, but in my opinion it's well worth it.
