As a successful startup, there will be future rounds of funding. Any follow-on investor will eventually find out about problems on a cap table. They will probably fight to reverse it before an investment, or worse - it will sink the deal and the company. If OP's VC is a novice, maybe they don't know about liquidation preference. If they are not new, then perhaps the community should know about such divergent investment terms.
I agree about talking to a lawyer. But, in my experience, lawyers can find a way to make things work - and they won't stop a deal because of non-standard round terms. The non-standard terms hurt the company as they try to bring on additional investors. Any experienced founder or investor can provide guidance about how trying to "reinvent the wheel" for fundraising will cause problems down the line.
To OP, I suggest reading section 3 in this article by Roy Bahat: https://also.roybahat.com/dear-first-time-angel-investor-c6a...