IMO a better example is Matrix bridging - in order for an app like Signal to work on your Matrix account, you do have to compromise your Signal messages on it.
But otherwise, yeah, I definitely agree with your assessment. Even if Signal and SimpleX used an identical protocol, the nature of sealed sender messages would make spam prevention and server abuse more difficult to handle IMO. SimpleX is still relatively obscure, and I’m not sure what scaling up will look like for it.