Despite drastically curtailing operations at its popular picnic site last month, Tomales Bay Oyster Farm still faces substantial, unresolved regulatory problems.

The most serious issue is that the company’s largest aquaculture site, located off Millerton Point, has never had a coastal development permit. Within the last year—for apparently the first time—staff from the California Coastal Commission have suggested in letters over the past 14 months it may need an after-the-fact permit, which could be both…