Is something like that common?
No, that is not common. Also, citing time constraints is IMHO nonsense. The municipality must issue the waiver declaration immediately, unless it can justify a pre-emption right. Then it has two months to decide whether it wants to exercise it. It is incomprehensible to me why a notary does not request the declaration. Okay, “immediately” is an indefinite legal term and can mean three weeks with authorities, and yes, it costs fees (€50-€100), but with the sums involved in real estate transactions, it is rather negligible compared to the gain in security. Without the declaration, the land registry office will not make the transfer anyway, at least not before the two-month period expires, so the time factor works to the buyer’s disadvantage.
Possibly it varies by federal state regarding the pre-emption right
No, it is federal law.
The municipality always has a statutory pre-emption right due to certain circumstances (§ 24 Building Code), which is actually waived in 99.99% of all cases (because a) the municipality does not need the property and/or b) it has no money anyway).
I agree with the part after the comma, whereby 99.99% means that in one out of 10,000 purchases the right is exercised. A lottery player believes in big luck at completely different probabilities. Before the comma I find the formulation misleading. And because it is a widespread misconception that the municipality always has a pre-emption right, I want to formulate more clearly: The municipality is only entitled to the pre-emption right if a condition named in §24 Building Code is met or if it has enacted a statute under §25.
AFTER PURCHASE
The purchase did not actually take place; unfortunately, the buyer had already paid. Actually, there are notaries for such things, who are supposed to ensure that the purchase is securely handled simultaneously for both sides. Risk clauses in the notary contract are, in my opinion, attempts at fraud. The notary calls his own role in the handling of real estate transactions into question.
You could inquire at the municipality itself whether the property could be encumbered with a pre-emption right of the municipality.
Yes, but it is usually anchored in the notary contract so that the negative certificate becomes a condition precedent to the purchase price payment. I suspect that exactly that is intended to be circumvented. The buyer should be obliged to pay as quickly as possible so that he cannot even wait for the issuance of the declaration. And thus, the entire risk shifts to him.