I started a new thread for this as I wanted to make sure those who read my first post had the opportunity to read how it was handled as I have not been on here for a long time.
On the Monday following the incident I received a call from the store manager. He apologized for his assistant manager not taking the time to change the flag when I offered one. He informed me that his store supports the constitution and any law abiding customer is welcome to CCW or OC in his store at any time. If a customer feels uncomfortable he can have an employee walk with them during their shopping to make them feel more comfortable. He then invited me up to their store to help raise the new flag and meet me in person. I was very impressed by the store manager and It is safe to say I will be going there for my groceries for the foreseeable future.