Hi AmyMac,

I had this problem too and after 3 days trying to figure it out, here is the solution that worked for me:

Open your CHART OF ACCOUNTS; right click & choose the option to customize columns in the COA.

Add "1099 Account"  to your display & you can see which accounts are associated with it.

Go to VENDORS at the top toolbar, then down to PRINT/FILE 1099's, then to 1099 WIZARD .

Go all the way through the wizard, (even with nothing to file for 1099's), until it is completed / finished.

Go back and look at the 1099 boxes next to the COA - mine all went away.

Now I can arrange / change as I need to.

Hope you have success.