I am a little confused here - but that's probably an age and length-of-service issue!
Are you in Substitute Service Family Accommodation (SSFA) - which replaced the Excess Rental scheme some years ago? If you are, the rules are exactly the same as being in 'normal' quarters. Accordingly, you are a Licencee - not a tenant - and therefore you should not need (and I would counsel you not) to contact the landlord (in this case the owner of the house that you are occupying) as s/he could claim vicarious responsibility for any conversations that you might have with them.
All you should have to give is the required notice to vacate SFA. If HCR are bleating, refer the matter to your local DIO HASC to resolve. You could also talk to your OC PMS as they are the POC for housing issues, but with the increasing divorce of housing from maintstream Administrative duties, they will probably refer the matter to the HASC.
PM if you like - or check out this:
RAF Housing, Married Quarters. What is a Cuckoo? - RAF Families Federation