DNS replicating but not being dynamically updated by other DCs

Background on setup:
Our campus runs BIND for the DNS solution
Campus servers do not allow for dynamic updates of the root zone (school.university.edu), but are set to allow dynamic updates of the AD-related zones (_msdcs, _sites, _tcp, _udp, DomainDnsZones, ForestDnsZones)
We run Active Directory (2008R2/2012R2 Mixed Mode) with DNS
Our DCs are all listed in the NS tab of our zones, but are not truly authoritative...campus BIND servers are
We only have the default zones setup in our DNS, all allow for Dynamic updates (Secure Only)
DNS zones are ADI and replicate to all DNS servers in the domain (All 6 DCs are DNS servers)
Clients do not register with our DNS, they use the campus BIND servers. Only AD domain controllers are registered in our zones and allowed to dynamically update
Once upon a time, this setup worked without an issue. Dynamic updates worked without an issue within our ADI zones, as well in the campus BIND servers. When we started to add the new 2012R2 domain controllers into the mix, we noticed that this
was no longer the case. Since we don't often add or remove DCs from our setup, we do not know exactly when this broke.
The issue is that our campus BIND DNS servers show all of the appropriate DNS records flawlessly. We manually requested entries at the root (looks fine) and all AD zones updated dynamically with all expected records. Our AD DNS servers on the
other hand have a fair number of incorrect and missing records. The only one of the three new servers to have records in our AD DNS is the server we moved all of our FSMO roles to before our technician noticed the DNS issues. The other two have
no records dynamically generated in our AD DNS zones. We pulled one of the old 2008R2 DCs out of the domain using dcpromo since it had some other issues. As expected, it pulled all of its records out of campus BIND cleanly but left all of its records
in our AD DNS.
If we manually add/remove an entry (PTR, CNAME, A, SRV), the change replicates appropriately across the domain. However, we do not want to put a Band-Aid fix on this and manually enter all of the records. We want to figure out why these two servers
are not pushing their records into AD DNS despite updating them flawlessly in campus BIND servers.
DNS is not my forte, so I'd welcome any advice on what I can as my best next steps. I have played around a lot with modifying DNS servers listed in the DC network settings, and register this connection. We can confirm that replication seems to
be working fine. We can manually add records. DNS shows no errors in event log. When using dcdiag dns test, it shows that we have missing records in our DNS but no other issues are displayed. NSLOOKUP reveals campus DNS to be correct.
Any assistance would be appreciated...even if just to point me to a better tool for diagnostics. We have not yet tried reinstalling DNS on any of the DCs and wish to avoid that if possible.

Greg:
Thank you for taking the time to respond. I believe I have found a pseudo-solution earlier this week, but I find myself slightly confused by the solution. On our network connections for the DCs, we had been making the BIND servers the primary
and secondary DNS servers, then each of our DCs point to two of the other DCs for their tertiary and quaternary DNS servers. Since the BIND servers have all of the correct records, we flipped those to make the DCs our primary and secondary before BIND
servers. This got all of the records into our AD correctly.
It was my understanding that if you checked the "Register this connection in DNS" checkbox that it would register itself in all of the DNS servers in the list, but based off the above it seems it only registers in the first DNS server it successfully connects
to; assuming it expects that primary server to replicate the records to others. If this new assumption is true, then I am trying to figure out how I am supposed to get my DCs to dynamically update both AD-DNS and BIND when I make changes. This
may be best suited in another thread, so I'll gladly break it out into another if needed. I do not have control over the BIND DNS servers, except for the fact that my DCs are allowed to dynamically update the AD subzones. I have full control over
my AD-DNS, but my clients computers are required to point to BIND for their DNS.

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