I report only to the owner.
I disagree with: "Pretty much standard Org chart that the person responsible for Food Safety or Quality direct reports to the facility manager."
I don't disagree that it's the case, but that it's a good idea. A plant manager may wish to make decisions to get product out the door that will not align with food safety/QC concerns. I know I've certainly had that issue with my plant manager. His motto is: "Whatever. Ship it." And that's a no go. I don't interfere in production, but when it comes to QC/food safety, his say is void, it's my call. He may not override my decisions, nor should he/she be able to do so. I've read too much on this forum where the facility manager or suits up front make decisions based on money (or other reasons) that don't support the team taking care of HACCP, the GFSI cert, or worse.
I haven't had a problem with the current owner, but the previous owner once didn't agree with me on something that was absolutely black and white food safety wise. I quit on the spot, and walked out quite angry. He called me back in a few days and rehired me, and acquiesced, Other than that, the owner has always agreed what's right is right, and must be done. My dad used to say "there's no right way to do the wrong thing."