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Sounds like your accountant is trying to offer legal advice. I'd ask your accountant to stick to the accounting side of it, and let the attorney guide you in legal matters.
For what it's worth, our landscaping company is a subchapter S corp, and GTX is an LLC. From my understanding of each, tax implications of each are about the same, as is the protection, but an LLC has less reporting requirements, making it a bit easier to manage.
There are certain points where you'd want to be a C corp instead of S corp; I don't recall what those points are, but I do know I haven't reached 'em.
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