I think you're fencing yourselves in by asking for a resort that's similar to Buddy Dive but isn't Buddy Dive. We've been there and done that, including twice at Buddy, once at Lion's Dive (now part of Buddy Dive), and once at Buddy's southern Belmar property. Belmar is the only one that comes close, but the house reef isn't as good as at Buddy, there's no restaurant or bar on-site, and parking can be miserable if the property is anywhere near full. Captain Don's Habitat is popular with some folks but it never made our short list for the same reasons mentioned in previous posts here.
Our preferred solution in recent years has been to pick and choose from available accommodations, dive operation, and rental truck companies to get the package that's most appealing to us. For example our current preference is to stay at Beachcomber Villas (just north of Habitat), rent our truck from Telerin, and dive with Dive Friends Bonaire. Sure we have to make reservations and payments separately, but the day to day vacation experience is seamless. We pick the rental truck up in the short-term lot at the airport and return it to the same place. Dive Friends Hamlet Oasis shop is closer to our villa than Buddy's shop is to some of their apartments. And we enjoy oceanfront accommodations in one of only two available apartments. Oh yeah... and we get private immediate access to The Cliff dive site as our house reef.
That's just our example and others here have similar experiences with other properties and service combinations. But if you're looking for one-stop shopping (i.e. "book it and forget it") for a Bonaire dive trip for American divers, I think you'll be hard-pressed to find better than Buddy Dive. Just my two cents.