Registrars have to follow requirements as well. It is correct to plan the re-certification audit sometime in advance of the expiration of the validity of the certificate, so any issues arising from the re-certification audit can be resolved prior to the certificate “ceasing” to be valid.
I believe that being forthcoming and open with your registrar is definitely the right approach, but if the system is not implemented, one should not expect to be certified. From your comments, your system was based on 1 individual. What contravenes a basic premise of what a quality system should be.
My suggestion to you, at this time is: Call your registrar and ask for a voluntary suspension of the certificate. Tell them that you will call them, when you are ready to resume the certification program. Decide if you need external assistance or not to put a system in place. There are plenty of knowledgeable, professional people here in So-Cal. But since you are listed as the president of the company, you might want to build your system with your own internal resources. It is doable. It might take a little longer, but you will ensure that a true system exists.
Concerning the actual findings you listed, I did not see the ISO logo in your website. So, I assume that you already fixed that. But even if it was there, it should have not been written up. Auditors are supposed to identify misuse of the certification mark, not the ISO logo. Once again, using the ISO logo is prohibited by ISO. See
http://www.iso.org/iso/en/iso9000-14000/certification/publicizing/index.html but should not be written up as a finding during an ISO 9001 audit, imo.
The Design issue definitely must be resolved. It needs to be clarified in your manual as part of the Scope of your Management System. Either done in-house or outsourced, if you sell design services, you will definitely need to find ways to comply with ISO 9001 7.3. PS. Seems that the word excelled is misspelled in your website – exelled –
Good luck and, like Wes said, relax.