I would leave the shelves as is. They give you a nice sturdy place to up-pot, hold water buckets etc... Plans change. You may want to bring some bigger pots in to nurse them back to health. You could add a couple wire closet shelves above/below. Then you could remove the brace so they fold down. This gives you a place to germinate more trays with the ability to fold them down so you don't shade the wood shelves.
Other options. You can put diagonal strap bracing on the corners for shear strength. It is what they use on outside corners of homes when they are just foam and vinyl siding to meet wind ratings. Simply put the polycarb right over them.
If you have any snow load(not sure where in CA you are located) I would consider a collar tie 1/3 or so from the top. The ridge beam will want to sag and it will push out the sidewalls.
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