Hello
@stormy,
The Transfer Tool updates DNS records that reference the old IP address to use the account's new IP address. Thus, if the account is assigned an IP address of "1.2.3.4" on the source server, then the DNS zone created on the destination server during the transfer process will automatically replace DNS entries referencing "1.2.3.4" with the IP address assigned to the account on the destination server. If there's an "A" record in the zone on the source server that points to another IP address, say "5.6.7.8", then that IP address is preserved in the DNS zone created on the destination server.
I believe the behavior you are reporting is related to an existing bug (CPANEL-5579), where the "Express Transfer" option changes all IP Addresses in the source server's zone file to match the destination server IP address, even if it's not an IP address that's used on the source server. There's no time frame to report on a resolution, however I'll update this thread with more information on the status of this case as it becomes available.
Thank you.