When sorting panels the number of variants is limited to 60 because of the delta of 30 set in page_manager_handler_rearrange() in page_manager.admin.inc.

The same problem has been reported before (https://www.drupal.org/node/846408, D6), back then the limit was 20 and it was solved by setting the delta to 30 so the limit is now 60.

We could set the delta higher again but it would be better to set this value dynamically to the number of available variants so this problem will never occur again. Not sure if this code is the same for D8, if it's not then just setting the value a bit higher might be enough for now.

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markwittens created an issue.